-- dump date 20140620_032535 -- class Genbank::misc_feature -- table misc_feature_note -- id note 316057000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 316057000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 316057000003 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 316057000004 Walker A motif; other site 316057000005 ATP binding site [chemical binding]; other site 316057000006 Walker B motif; other site 316057000007 arginine finger; other site 316057000008 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 316057000009 DnaA box-binding interface [nucleotide binding]; other site 316057000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 316057000011 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 316057000012 putative DNA binding surface [nucleotide binding]; other site 316057000013 dimer interface [polypeptide binding]; other site 316057000014 beta-clamp/clamp loader binding surface; other site 316057000015 beta-clamp/translesion DNA polymerase binding surface; other site 316057000016 recombination protein F; Reviewed; Region: recF; PRK00064 316057000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057000018 Walker A/P-loop; other site 316057000019 ATP binding site [chemical binding]; other site 316057000020 Q-loop/lid; other site 316057000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057000022 ABC transporter signature motif; other site 316057000023 Walker B; other site 316057000024 D-loop; other site 316057000025 H-loop/switch region; other site 316057000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 316057000027 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 316057000028 Mg2+ binding site [ion binding]; other site 316057000029 G-X-G motif; other site 316057000030 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 316057000031 anchoring element; other site 316057000032 dimer interface [polypeptide binding]; other site 316057000033 ATP binding site [chemical binding]; other site 316057000034 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 316057000035 active site 316057000036 putative metal-binding site [ion binding]; other site 316057000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316057000038 KTSC domain; Region: KTSC; pfam13619 316057000039 Divergent AAA domain; Region: AAA_4; pfam04326 316057000040 Uncharacterized conserved protein [Function unknown]; Region: COG2135 316057000041 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 316057000042 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 316057000043 PLD-like domain; Region: PLDc_2; pfam13091 316057000044 putative active site [active] 316057000045 catalytic site [active] 316057000046 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 316057000047 ATP binding site [chemical binding]; other site 316057000048 putative Mg++ binding site [ion binding]; other site 316057000049 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 316057000050 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 316057000051 nucleotide binding region [chemical binding]; other site 316057000052 ATP-binding site [chemical binding]; other site 316057000053 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 316057000054 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 316057000055 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 316057000056 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 316057000057 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 316057000058 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 316057000059 Protein of unknown function (DUF499); Region: DUF499; pfam04465 316057000060 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057000061 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 316057000062 putative active site [active] 316057000063 putative metal binding site [ion binding]; other site 316057000064 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 316057000065 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316057000066 Walker A motif; other site 316057000067 ATP binding site [chemical binding]; other site 316057000068 Walker B motif; other site 316057000069 arginine finger; other site 316057000070 Peptidase family M41; Region: Peptidase_M41; pfam01434 316057000071 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 316057000072 Integrase core domain; Region: rve; pfam00665 316057000073 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 316057000074 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 316057000075 AAA domain; Region: AAA_22; pfam13401 316057000076 Walker A motif; other site 316057000077 ATP binding site [chemical binding]; other site 316057000078 Walker B motif; other site 316057000079 arginine finger; other site 316057000080 TniQ; Region: TniQ; pfam06527 316057000081 TniQ; Region: TniQ; pfam06527 316057000082 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 316057000083 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 316057000084 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 316057000085 Predicted metal binding domain; Region: Metal_CEHH; pfam14455 316057000086 E1 N-terminal domain; Region: E1-N; pfam14463 316057000087 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 316057000088 ATP binding site [chemical binding]; other site 316057000089 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 316057000090 Part of AAA domain; Region: AAA_19; pfam13245 316057000091 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 316057000092 Family description; Region: UvrD_C_2; pfam13538 316057000093 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 316057000094 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 316057000095 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057000096 active site 316057000097 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057000098 Cytochrome P450; Region: p450; cl12078 316057000099 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057000100 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057000101 acyl-activating enzyme (AAE) consensus motif; other site 316057000102 AMP binding site [chemical binding]; other site 316057000103 active site 316057000104 CoA binding site [chemical binding]; other site 316057000105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057000106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057000107 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316057000108 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316057000109 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316057000110 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316057000111 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316057000112 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 316057000113 substrate binding site [chemical binding]; other site 316057000114 oxyanion hole (OAH) forming residues; other site 316057000115 trimer interface [polypeptide binding]; other site 316057000116 Transcriptional regulators [Transcription]; Region: FadR; COG2186 316057000117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316057000118 DNA-binding site [nucleotide binding]; DNA binding site 316057000119 FCD domain; Region: FCD; pfam07729 316057000120 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057000121 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057000122 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057000123 acyl-activating enzyme (AAE) consensus motif; other site 316057000124 acyl-activating enzyme (AAE) consensus motif; other site 316057000125 putative AMP binding site [chemical binding]; other site 316057000126 putative active site [active] 316057000127 putative CoA binding site [chemical binding]; other site 316057000128 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057000129 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057000130 putative ligand binding site [chemical binding]; other site 316057000131 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 316057000132 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 316057000133 NAD(P) binding site [chemical binding]; other site 316057000134 catalytic residues [active] 316057000135 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057000136 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057000137 Walker A/P-loop; other site 316057000138 ATP binding site [chemical binding]; other site 316057000139 Q-loop/lid; other site 316057000140 ABC transporter signature motif; other site 316057000141 Walker B; other site 316057000142 D-loop; other site 316057000143 H-loop/switch region; other site 316057000144 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057000145 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057000146 Walker A/P-loop; other site 316057000147 ATP binding site [chemical binding]; other site 316057000148 Q-loop/lid; other site 316057000149 ABC transporter signature motif; other site 316057000150 Walker B; other site 316057000151 D-loop; other site 316057000152 H-loop/switch region; other site 316057000153 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057000154 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057000155 TM-ABC transporter signature motif; other site 316057000156 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057000157 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057000158 TM-ABC transporter signature motif; other site 316057000159 enoyl-CoA hydratase; Provisional; Region: PRK06210 316057000160 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 316057000161 substrate binding site [chemical binding]; other site 316057000162 oxyanion hole (OAH) forming residues; other site 316057000163 trimer interface [polypeptide binding]; other site 316057000164 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 316057000165 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 316057000166 tellurite resistance protein terB; Region: terB; cd07176 316057000167 putative metal binding site [ion binding]; other site 316057000168 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 316057000169 putative DNA binding site [nucleotide binding]; other site 316057000170 dimerization interface [polypeptide binding]; other site 316057000171 putative Zn2+ binding site [ion binding]; other site 316057000172 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14839 316057000173 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 316057000174 catalytic residue [active] 316057000175 putative FPP diphosphate binding site; other site 316057000176 putative FPP binding hydrophobic cleft; other site 316057000177 dimer interface [polypeptide binding]; other site 316057000178 putative IPP diphosphate binding site; other site 316057000179 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 316057000180 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 316057000181 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 316057000182 FeS/SAM binding site; other site 316057000183 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316057000184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316057000185 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057000186 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 316057000187 dimerization interface [polypeptide binding]; other site 316057000188 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057000189 dimer interface [polypeptide binding]; other site 316057000190 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057000191 putative CheW interface [polypeptide binding]; other site 316057000192 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057000193 GAF domain; Region: GAF; pfam01590 316057000194 PAS fold; Region: PAS_7; pfam12860 316057000195 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057000196 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057000197 metal binding site [ion binding]; metal-binding site 316057000198 active site 316057000199 I-site; other site 316057000200 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 316057000201 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 316057000202 ATP binding site [chemical binding]; other site 316057000203 Mg2+ binding site [ion binding]; other site 316057000204 G-X-G motif; other site 316057000205 Ribonuclease P; Region: Ribonuclease_P; cl00457 316057000206 membrane protein insertase; Provisional; Region: PRK01318 316057000207 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 316057000208 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 316057000209 G1 box; other site 316057000210 GTP/Mg2+ binding site [chemical binding]; other site 316057000211 Switch I region; other site 316057000212 G2 box; other site 316057000213 G3 box; other site 316057000214 Switch II region; other site 316057000215 G4 box; other site 316057000216 G5 box; other site 316057000217 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 316057000218 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 316057000219 feedback inhibition sensing region; other site 316057000220 homohexameric interface [polypeptide binding]; other site 316057000221 nucleotide binding site [chemical binding]; other site 316057000222 N-acetyl-L-glutamate binding site [chemical binding]; other site 316057000223 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 316057000224 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057000225 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 316057000226 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 316057000227 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 316057000228 motif II; other site 316057000229 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 316057000230 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 316057000231 trimer interface [polypeptide binding]; other site 316057000232 active site 316057000233 substrate binding site [chemical binding]; other site 316057000234 CoA binding site [chemical binding]; other site 316057000235 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 316057000236 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 316057000237 metal binding site [ion binding]; metal-binding site 316057000238 dimer interface [polypeptide binding]; other site 316057000239 Transposase domain (DUF772); Region: DUF772; pfam05598 316057000240 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316057000241 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 316057000242 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 316057000243 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 316057000244 dimerization interface 3.5A [polypeptide binding]; other site 316057000245 active site 316057000246 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 316057000247 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 316057000248 putative active site [active] 316057000249 substrate binding site [chemical binding]; other site 316057000250 putative cosubstrate binding site; other site 316057000251 catalytic site [active] 316057000252 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 316057000253 substrate binding site [chemical binding]; other site 316057000254 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 316057000255 active site 316057000256 catalytic residues [active] 316057000257 metal binding site [ion binding]; metal-binding site 316057000258 RmuC family; Region: RmuC; pfam02646 316057000259 muropeptide transporter; Validated; Region: ampG; cl17669 316057000260 muropeptide transporter; Reviewed; Region: ampG; PRK11902 316057000261 recombination protein RecR; Reviewed; Region: recR; PRK00076 316057000262 RecR protein; Region: RecR; pfam02132 316057000263 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 316057000264 tetramer interface [polypeptide binding]; other site 316057000265 putative active site [active] 316057000266 putative metal-binding site [ion binding]; other site 316057000267 hypothetical protein; Validated; Region: PRK00153 316057000268 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 316057000269 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 316057000270 Walker A motif; other site 316057000271 ATP binding site [chemical binding]; other site 316057000272 Walker B motif; other site 316057000273 arginine finger; other site 316057000274 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 316057000275 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 316057000276 HIT domain; Region: HIT; pfam01230 316057000277 nucleotide binding site/active site [active] 316057000278 HIT family signature motif; other site 316057000279 catalytic residue [active] 316057000280 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 316057000281 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 316057000282 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 316057000283 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 316057000284 putative NADH binding site [chemical binding]; other site 316057000285 putative active site [active] 316057000286 nudix motif; other site 316057000287 putative metal binding site [ion binding]; other site 316057000288 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316057000289 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 316057000290 substrate binding site [chemical binding]; other site 316057000291 ATP binding site [chemical binding]; other site 316057000292 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 316057000293 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 316057000294 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 316057000295 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316057000296 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 316057000297 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 316057000298 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 316057000299 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 316057000300 peptide chain release factor 1; Validated; Region: prfA; PRK00591 316057000301 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316057000302 RF-1 domain; Region: RF-1; pfam00472 316057000303 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 316057000304 GAF domain; Region: GAF; pfam01590 316057000305 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316057000306 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316057000307 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316057000308 aspartate kinase; Reviewed; Region: PRK06635 316057000309 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 316057000310 putative nucleotide binding site [chemical binding]; other site 316057000311 putative catalytic residues [active] 316057000312 putative Mg ion binding site [ion binding]; other site 316057000313 putative aspartate binding site [chemical binding]; other site 316057000314 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 316057000315 putative allosteric regulatory site; other site 316057000316 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 316057000317 putative allosteric regulatory residue; other site 316057000318 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 316057000319 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 316057000320 S-adenosylmethionine binding site [chemical binding]; other site 316057000321 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 316057000322 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 316057000323 Predicted membrane protein [Function unknown]; Region: COG2510 316057000324 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 316057000325 nitrilase; Region: PLN02798 316057000326 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 316057000327 putative active site [active] 316057000328 catalytic triad [active] 316057000329 dimer interface [polypeptide binding]; other site 316057000330 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 316057000331 GSH binding site [chemical binding]; other site 316057000332 catalytic residues [active] 316057000333 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 316057000334 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057000335 active site 316057000336 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 316057000337 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 316057000338 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 316057000339 active site 316057000340 8-oxo-dGMP binding site [chemical binding]; other site 316057000341 nudix motif; other site 316057000342 metal binding site [ion binding]; metal-binding site 316057000343 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 316057000344 heterotetramer interface [polypeptide binding]; other site 316057000345 active site pocket [active] 316057000346 cleavage site 316057000347 OsmC-like protein; Region: OsmC; pfam02566 316057000348 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316057000349 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316057000350 Walker A/P-loop; other site 316057000351 ATP binding site [chemical binding]; other site 316057000352 Q-loop/lid; other site 316057000353 ABC transporter signature motif; other site 316057000354 Walker B; other site 316057000355 D-loop; other site 316057000356 H-loop/switch region; other site 316057000357 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316057000358 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 316057000359 dimer interface [polypeptide binding]; other site 316057000360 conserved gate region; other site 316057000361 putative PBP binding loops; other site 316057000362 ABC-ATPase subunit interface; other site 316057000363 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316057000364 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 316057000365 substrate binding pocket [chemical binding]; other site 316057000366 membrane-bound complex binding site; other site 316057000367 hinge residues; other site 316057000368 PII uridylyl-transferase; Provisional; Region: PRK05092 316057000369 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316057000370 metal binding triad; other site 316057000371 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316057000372 HD domain; Region: HD; pfam01966 316057000373 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 316057000374 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 316057000375 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316057000376 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057000377 GAF domain; Region: GAF; pfam01590 316057000378 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057000379 GAF domain; Region: GAF; pfam01590 316057000380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316057000381 HWE histidine kinase; Region: HWE_HK; smart00911 316057000382 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316057000383 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 316057000384 dimer interface [polypeptide binding]; other site 316057000385 phosphorylation site [posttranslational modification] 316057000386 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 316057000387 ATP binding site [chemical binding]; other site 316057000388 Mg2+ binding site [ion binding]; other site 316057000389 G-X-G motif; other site 316057000390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057000391 active site 316057000392 phosphorylation site [posttranslational modification] 316057000393 intermolecular recognition site; other site 316057000394 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057000395 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057000396 putative ligand binding site [chemical binding]; other site 316057000397 Transglycosylase; Region: Transgly; pfam00912 316057000398 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 316057000399 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316057000400 Protein of unknown function DUF45; Region: DUF45; pfam01863 316057000401 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 316057000402 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 316057000403 Methyltransferase domain; Region: Methyltransf_18; pfam12847 316057000404 S-adenosylmethionine binding site [chemical binding]; other site 316057000405 ABC-2 type transporter; Region: ABC2_membrane; cl17235 316057000406 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316057000407 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 316057000408 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316057000409 Walker A/P-loop; other site 316057000410 ATP binding site [chemical binding]; other site 316057000411 Q-loop/lid; other site 316057000412 ABC transporter signature motif; other site 316057000413 Walker B; other site 316057000414 D-loop; other site 316057000415 H-loop/switch region; other site 316057000416 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057000417 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 316057000418 dimer interface [polypeptide binding]; other site 316057000419 phosphorylation site [posttranslational modification] 316057000420 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 316057000421 ATP binding site [chemical binding]; other site 316057000422 Mg2+ binding site [ion binding]; other site 316057000423 G-X-G motif; other site 316057000424 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 316057000425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057000426 active site 316057000427 phosphorylation site [posttranslational modification] 316057000428 intermolecular recognition site; other site 316057000429 dimerization interface [polypeptide binding]; other site 316057000430 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 316057000431 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 316057000432 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 316057000433 metal ion-dependent adhesion site (MIDAS); other site 316057000434 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316057000435 Helix-turn-helix domain; Region: HTH_18; pfam12833 316057000436 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 316057000437 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 316057000438 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 316057000439 Chromate transporter; Region: Chromate_transp; pfam02417 316057000440 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 316057000441 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 316057000442 Predicted membrane protein [Function unknown]; Region: COG4129 316057000443 Fusaric acid resistance protein family; Region: FUSC; pfam04632 316057000444 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 316057000445 PAS domain; Region: PAS_9; pfam13426 316057000446 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 316057000447 putative active site [active] 316057000448 heme pocket [chemical binding]; other site 316057000449 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 316057000450 Pirin-related protein [General function prediction only]; Region: COG1741 316057000451 Pirin; Region: Pirin; pfam02678 316057000452 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 316057000453 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 316057000454 ATP binding site [chemical binding]; other site 316057000455 active site 316057000456 substrate binding site [chemical binding]; other site 316057000457 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316057000458 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 316057000459 substrate binding site [chemical binding]; other site 316057000460 oxyanion hole (OAH) forming residues; other site 316057000461 trimer interface [polypeptide binding]; other site 316057000462 hypothetical protein; Reviewed; Region: PRK00024 316057000463 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316057000464 MPN+ (JAMM) motif; other site 316057000465 Zinc-binding site [ion binding]; other site 316057000466 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 316057000467 dimerization interface [polypeptide binding]; other site 316057000468 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057000469 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057000470 dimer interface [polypeptide binding]; other site 316057000471 putative CheW interface [polypeptide binding]; other site 316057000472 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 316057000473 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 316057000474 putative DNA binding site [nucleotide binding]; other site 316057000475 putative homodimer interface [polypeptide binding]; other site 316057000476 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 316057000477 active site 316057000478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316057000479 potassium/proton antiporter; Reviewed; Region: PRK05326 316057000480 Transporter associated domain; Region: CorC_HlyC; smart01091 316057000481 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 316057000482 PAS fold; Region: PAS_7; pfam12860 316057000483 PAS domain S-box; Region: sensory_box; TIGR00229 316057000484 PAS domain; Region: PAS_8; pfam13188 316057000485 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057000486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057000487 metal binding site [ion binding]; metal-binding site 316057000488 active site 316057000489 I-site; other site 316057000490 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 316057000491 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 316057000492 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 316057000493 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 316057000494 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 316057000495 putative tRNA-binding site [nucleotide binding]; other site 316057000496 B3/4 domain; Region: B3_4; pfam03483 316057000497 tRNA synthetase B5 domain; Region: B5; smart00874 316057000498 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 316057000499 dimer interface [polypeptide binding]; other site 316057000500 motif 1; other site 316057000501 motif 3; other site 316057000502 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 316057000503 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316057000504 putative active site [active] 316057000505 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 316057000506 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 316057000507 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 316057000508 dimer interface [polypeptide binding]; other site 316057000509 motif 1; other site 316057000510 active site 316057000511 motif 2; other site 316057000512 motif 3; other site 316057000513 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 316057000514 23S rRNA binding site [nucleotide binding]; other site 316057000515 L21 binding site [polypeptide binding]; other site 316057000516 L13 binding site [polypeptide binding]; other site 316057000517 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 316057000518 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 316057000519 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 316057000520 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 316057000521 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057000522 epoxyqueuosine reductase; Region: TIGR00276 316057000523 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 316057000524 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057000525 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 316057000526 C-terminal domain interface [polypeptide binding]; other site 316057000527 GSH binding site (G-site) [chemical binding]; other site 316057000528 dimer interface [polypeptide binding]; other site 316057000529 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 316057000530 N-terminal domain interface [polypeptide binding]; other site 316057000531 dimer interface [polypeptide binding]; other site 316057000532 substrate binding pocket (H-site) [chemical binding]; other site 316057000533 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 316057000534 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 316057000535 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 316057000536 putative NAD(P) binding site [chemical binding]; other site 316057000537 active site 316057000538 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 316057000539 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 316057000540 catalytic site [active] 316057000541 putative active site [active] 316057000542 putative substrate binding site [chemical binding]; other site 316057000543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 316057000544 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 316057000545 OstA-like protein; Region: OstA; pfam03968 316057000546 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 316057000547 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 316057000548 Walker A/P-loop; other site 316057000549 ATP binding site [chemical binding]; other site 316057000550 Q-loop/lid; other site 316057000551 ABC transporter signature motif; other site 316057000552 Walker B; other site 316057000553 D-loop; other site 316057000554 H-loop/switch region; other site 316057000555 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 316057000556 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 316057000557 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 316057000558 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 316057000559 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 316057000560 30S subunit binding site; other site 316057000561 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 316057000562 active site 316057000563 phosphorylation site [posttranslational modification] 316057000564 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 316057000565 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316057000566 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 316057000567 putative dimer interface [polypeptide binding]; other site 316057000568 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316057000569 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316057000570 Walker A/P-loop; other site 316057000571 ATP binding site [chemical binding]; other site 316057000572 Q-loop/lid; other site 316057000573 ABC transporter signature motif; other site 316057000574 Walker B; other site 316057000575 D-loop; other site 316057000576 H-loop/switch region; other site 316057000577 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316057000578 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 316057000579 dimer interface [polypeptide binding]; other site 316057000580 conserved gate region; other site 316057000581 putative PBP binding loops; other site 316057000582 ABC-ATPase subunit interface; other site 316057000583 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316057000584 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 316057000585 ABC-ATPase subunit interface; other site 316057000586 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316057000587 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316057000588 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057000589 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057000590 TIGR02300 family protein; Region: FYDLN_acid 316057000591 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 316057000592 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 316057000593 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 316057000594 hinge; other site 316057000595 active site 316057000596 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 316057000597 putative acyl-acceptor binding pocket; other site 316057000598 cytidylate kinase; Provisional; Region: cmk; PRK00023 316057000599 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 316057000600 CMP-binding site; other site 316057000601 The sites determining sugar specificity; other site 316057000602 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 316057000603 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 316057000604 RNA binding site [nucleotide binding]; other site 316057000605 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 316057000606 RNA binding site [nucleotide binding]; other site 316057000607 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 316057000608 RNA binding site [nucleotide binding]; other site 316057000609 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 316057000610 RNA binding site [nucleotide binding]; other site 316057000611 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 316057000612 RNA binding site [nucleotide binding]; other site 316057000613 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 316057000614 RNA binding site [nucleotide binding]; other site 316057000615 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 316057000616 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 316057000617 tandem repeat interface [polypeptide binding]; other site 316057000618 oligomer interface [polypeptide binding]; other site 316057000619 active site residues [active] 316057000620 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 316057000621 IHF dimer interface [polypeptide binding]; other site 316057000622 IHF - DNA interface [nucleotide binding]; other site 316057000623 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 316057000624 active site 316057000625 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 316057000626 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 316057000627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057000628 catalytic residue [active] 316057000629 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 316057000630 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 316057000631 substrate binding site [chemical binding]; other site 316057000632 active site 316057000633 catalytic residues [active] 316057000634 heterodimer interface [polypeptide binding]; other site 316057000635 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 316057000636 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 316057000637 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 316057000638 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316057000639 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 316057000640 catalytic residues [active] 316057000641 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 316057000642 Part of AAA domain; Region: AAA_19; pfam13245 316057000643 Family description; Region: UvrD_C_2; pfam13538 316057000644 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 316057000645 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 316057000646 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 316057000647 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 316057000648 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 316057000649 Substrate binding site; other site 316057000650 metal-binding site 316057000651 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 316057000652 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 316057000653 Phosphotransferase enzyme family; Region: APH; pfam01636 316057000654 PAS fold; Region: PAS_7; pfam12860 316057000655 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316057000656 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 316057000657 dimer interface [polypeptide binding]; other site 316057000658 phosphorylation site [posttranslational modification] 316057000659 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 316057000660 ATP binding site [chemical binding]; other site 316057000661 Mg2+ binding site [ion binding]; other site 316057000662 G-X-G motif; other site 316057000663 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 316057000664 trimer interface [polypeptide binding]; other site 316057000665 active site 316057000666 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 316057000667 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 316057000668 Flavoprotein; Region: Flavoprotein; pfam02441 316057000669 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 316057000670 ABC1 family; Region: ABC1; cl17513 316057000671 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 316057000672 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 316057000673 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 316057000674 S-adenosylmethionine binding site [chemical binding]; other site 316057000675 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 316057000676 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 316057000677 DNA binding site [nucleotide binding] 316057000678 catalytic residue [active] 316057000679 H2TH interface [polypeptide binding]; other site 316057000680 putative catalytic residues [active] 316057000681 turnover-facilitating residue; other site 316057000682 intercalation triad [nucleotide binding]; other site 316057000683 8OG recognition residue [nucleotide binding]; other site 316057000684 putative reading head residues; other site 316057000685 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 316057000686 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316057000687 Transposase domain (DUF772); Region: DUF772; pfam05598 316057000688 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316057000689 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 316057000690 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057000691 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057000692 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 316057000693 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 316057000694 ATP binding site [chemical binding]; other site 316057000695 substrate interface [chemical binding]; other site 316057000696 Transposase domain (DUF772); Region: DUF772; pfam05598 316057000697 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316057000698 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 316057000699 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316057000700 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 316057000701 dimerization interface [polypeptide binding]; other site 316057000702 ligand binding site [chemical binding]; other site 316057000703 NADP binding site [chemical binding]; other site 316057000704 catalytic site [active] 316057000705 Bacterial SH3 domain; Region: SH3_4; pfam06347 316057000706 Bacterial SH3 domain; Region: SH3_4; pfam06347 316057000707 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316057000708 metal binding site 2 [ion binding]; metal-binding site 316057000709 putative DNA binding helix; other site 316057000710 metal binding site 1 [ion binding]; metal-binding site 316057000711 dimer interface [polypeptide binding]; other site 316057000712 structural Zn2+ binding site [ion binding]; other site 316057000713 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 316057000714 active site 1 [active] 316057000715 dimer interface [polypeptide binding]; other site 316057000716 active site 2 [active] 316057000717 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 316057000718 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 316057000719 dimer interface [polypeptide binding]; other site 316057000720 active site 316057000721 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 316057000722 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316057000723 NAD binding site [chemical binding]; other site 316057000724 homotetramer interface [polypeptide binding]; other site 316057000725 homodimer interface [polypeptide binding]; other site 316057000726 substrate binding site [chemical binding]; other site 316057000727 active site 316057000728 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 316057000729 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 316057000730 dimer interface [polypeptide binding]; other site 316057000731 active site 316057000732 heme binding site [chemical binding]; other site 316057000733 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 316057000734 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 316057000735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057000736 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 316057000737 dimerization interface [polypeptide binding]; other site 316057000738 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 316057000739 PAS domain; Region: PAS_9; pfam13426 316057000740 putative active site [active] 316057000741 heme pocket [chemical binding]; other site 316057000742 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 316057000743 PAS domain; Region: PAS_9; pfam13426 316057000744 putative active site [active] 316057000745 heme pocket [chemical binding]; other site 316057000746 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 316057000747 PAS domain; Region: PAS_9; pfam13426 316057000748 putative active site [active] 316057000749 heme pocket [chemical binding]; other site 316057000750 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057000751 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057000752 dimer interface [polypeptide binding]; other site 316057000753 putative CheW interface [polypeptide binding]; other site 316057000754 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 316057000755 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316057000756 putative active site [active] 316057000757 heme pocket [chemical binding]; other site 316057000758 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 316057000759 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316057000760 putative active site [active] 316057000761 heme pocket [chemical binding]; other site 316057000762 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 316057000763 putative active site [active] 316057000764 heme pocket [chemical binding]; other site 316057000765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057000766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057000767 dimer interface [polypeptide binding]; other site 316057000768 putative CheW interface [polypeptide binding]; other site 316057000769 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 316057000770 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 316057000771 RNase E interface [polypeptide binding]; other site 316057000772 trimer interface [polypeptide binding]; other site 316057000773 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 316057000774 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 316057000775 RNase E interface [polypeptide binding]; other site 316057000776 trimer interface [polypeptide binding]; other site 316057000777 active site 316057000778 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 316057000779 putative nucleic acid binding region [nucleotide binding]; other site 316057000780 G-X-X-G motif; other site 316057000781 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 316057000782 RNA binding site [nucleotide binding]; other site 316057000783 domain interface; other site 316057000784 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 316057000785 16S/18S rRNA binding site [nucleotide binding]; other site 316057000786 S13e-L30e interaction site [polypeptide binding]; other site 316057000787 25S rRNA binding site [nucleotide binding]; other site 316057000788 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 316057000789 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 316057000790 RNA binding site [nucleotide binding]; other site 316057000791 active site 316057000792 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 316057000793 translation initiation factor IF-2; Region: IF-2; TIGR00487 316057000794 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 316057000795 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 316057000796 G1 box; other site 316057000797 putative GEF interaction site [polypeptide binding]; other site 316057000798 GTP/Mg2+ binding site [chemical binding]; other site 316057000799 Switch I region; other site 316057000800 G2 box; other site 316057000801 G3 box; other site 316057000802 Switch II region; other site 316057000803 G4 box; other site 316057000804 G5 box; other site 316057000805 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 316057000806 Translation-initiation factor 2; Region: IF-2; pfam11987 316057000807 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 316057000808 hypothetical protein; Provisional; Region: PRK09190 316057000809 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 316057000810 putative RNA binding cleft [nucleotide binding]; other site 316057000811 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 316057000812 NusA N-terminal domain; Region: NusA_N; pfam08529 316057000813 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 316057000814 RNA binding site [nucleotide binding]; other site 316057000815 homodimer interface [polypeptide binding]; other site 316057000816 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 316057000817 G-X-X-G motif; other site 316057000818 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 316057000819 G-X-X-G motif; other site 316057000820 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 316057000821 ribosome maturation protein RimP; Reviewed; Region: PRK00092 316057000822 Sm and related proteins; Region: Sm_like; cl00259 316057000823 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 316057000824 putative oligomer interface [polypeptide binding]; other site 316057000825 putative RNA binding site [nucleotide binding]; other site 316057000826 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316057000827 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 316057000828 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316057000829 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 316057000830 non-specific DNA binding site [nucleotide binding]; other site 316057000831 salt bridge; other site 316057000832 sequence-specific DNA binding site [nucleotide binding]; other site 316057000833 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 316057000834 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 316057000835 putative active site [active] 316057000836 catalytic triad [active] 316057000837 putative dimer interface [polypeptide binding]; other site 316057000838 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316057000839 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 316057000840 Transporter associated domain; Region: CorC_HlyC; smart01091 316057000841 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 316057000842 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 316057000843 PhoH-like protein; Region: PhoH; pfam02562 316057000844 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 316057000845 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316057000846 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 316057000847 FeS/SAM binding site; other site 316057000848 TRAM domain; Region: TRAM; cl01282 316057000849 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316057000850 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 316057000851 motif II; other site 316057000852 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316057000853 metal binding site 2 [ion binding]; metal-binding site 316057000854 putative DNA binding helix; other site 316057000855 metal binding site 1 [ion binding]; metal-binding site 316057000856 dimer interface [polypeptide binding]; other site 316057000857 structural Zn2+ binding site [ion binding]; other site 316057000858 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 316057000859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057000860 Coenzyme A binding pocket [chemical binding]; other site 316057000861 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 316057000862 Glycoprotease family; Region: Peptidase_M22; pfam00814 316057000863 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 316057000864 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 316057000865 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 316057000866 Ligand Binding Site [chemical binding]; other site 316057000867 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 316057000868 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 316057000869 active site 316057000870 HIGH motif; other site 316057000871 dimer interface [polypeptide binding]; other site 316057000872 KMSKS motif; other site 316057000873 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 316057000874 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 316057000875 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 316057000876 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316057000877 substrate binding site [chemical binding]; other site 316057000878 ATP binding site [chemical binding]; other site 316057000879 AMP-binding domain protein; Validated; Region: PRK08315 316057000880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057000881 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 316057000882 acyl-activating enzyme (AAE) consensus motif; other site 316057000883 putative AMP binding site [chemical binding]; other site 316057000884 putative active site [active] 316057000885 putative CoA binding site [chemical binding]; other site 316057000886 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316057000887 Beta-lactamase; Region: Beta-lactamase; pfam00144 316057000888 succinic semialdehyde dehydrogenase; Region: PLN02278 316057000889 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 316057000890 tetramerization interface [polypeptide binding]; other site 316057000891 NAD(P) binding site [chemical binding]; other site 316057000892 catalytic residues [active] 316057000893 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316057000894 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 316057000895 putative ligand binding site [chemical binding]; other site 316057000896 NAD binding site [chemical binding]; other site 316057000897 catalytic site [active] 316057000898 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316057000899 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 316057000900 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316057000901 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316057000902 Walker A/P-loop; other site 316057000903 ATP binding site [chemical binding]; other site 316057000904 Q-loop/lid; other site 316057000905 ABC transporter signature motif; other site 316057000906 Walker B; other site 316057000907 D-loop; other site 316057000908 H-loop/switch region; other site 316057000909 NMT1/THI5 like; Region: NMT1; pfam09084 316057000910 Creatinine amidohydrolase; Region: Creatininase; pfam02633 316057000911 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 316057000912 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 316057000913 active site 316057000914 FMN binding site [chemical binding]; other site 316057000915 substrate binding site [chemical binding]; other site 316057000916 3Fe-4S cluster binding site [ion binding]; other site 316057000917 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057000918 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 316057000919 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316057000920 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 316057000921 Prostaglandin dehydrogenases; Region: PGDH; cd05288 316057000922 NAD(P) binding site [chemical binding]; other site 316057000923 substrate binding site [chemical binding]; other site 316057000924 dimer interface [polypeptide binding]; other site 316057000925 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 316057000926 Predicted membrane protein [Function unknown]; Region: COG2261 316057000927 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316057000928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057000929 NAD(P) binding site [chemical binding]; other site 316057000930 active site 316057000931 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057000932 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057000933 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057000934 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057000935 active site 316057000936 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316057000937 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 316057000938 substrate binding site [chemical binding]; other site 316057000939 oxyanion hole (OAH) forming residues; other site 316057000940 trimer interface [polypeptide binding]; other site 316057000941 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 316057000942 active site 316057000943 metal binding site [ion binding]; metal-binding site 316057000944 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 316057000945 active site 316057000946 enoyl-CoA hydratase; Provisional; Region: PRK06688 316057000947 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 316057000948 substrate binding site [chemical binding]; other site 316057000949 oxyanion hole (OAH) forming residues; other site 316057000950 trimer interface [polypeptide binding]; other site 316057000951 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057000952 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057000953 putative ligand binding site [chemical binding]; other site 316057000954 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316057000955 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 316057000956 Peptidase family M48; Region: Peptidase_M48; pfam01435 316057000957 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 316057000958 Ferredoxin [Energy production and conversion]; Region: COG1146 316057000959 4Fe-4S binding domain; Region: Fer4; pfam00037 316057000960 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 316057000961 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 316057000962 RNA binding surface [nucleotide binding]; other site 316057000963 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 316057000964 DEAD/DEAH box helicase; Region: DEAD; pfam00270 316057000965 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 316057000966 nucleotide binding region [chemical binding]; other site 316057000967 ATP-binding site [chemical binding]; other site 316057000968 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 316057000969 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 316057000970 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 316057000971 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 316057000972 PAS domain; Region: PAS_9; pfam13426 316057000973 putative active site [active] 316057000974 heme pocket [chemical binding]; other site 316057000975 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316057000976 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 316057000977 putative active site [active] 316057000978 heme pocket [chemical binding]; other site 316057000979 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 316057000980 dimer interface [polypeptide binding]; other site 316057000981 phosphorylation site [posttranslational modification] 316057000982 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 316057000983 ATP binding site [chemical binding]; other site 316057000984 Mg2+ binding site [ion binding]; other site 316057000985 G-X-G motif; other site 316057000986 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057000987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057000988 active site 316057000989 phosphorylation site [posttranslational modification] 316057000990 intermolecular recognition site; other site 316057000991 dimerization interface [polypeptide binding]; other site 316057000992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 316057000993 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 316057000994 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 316057000995 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 316057000996 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 316057000997 metal ion-dependent adhesion site (MIDAS); other site 316057000998 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 316057000999 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 316057001000 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 316057001001 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 316057001002 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 316057001003 HSP70 interaction site [polypeptide binding]; other site 316057001004 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 316057001005 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 316057001006 Domain of unknown function DUF21; Region: DUF21; pfam01595 316057001007 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 316057001008 Transporter associated domain; Region: CorC_HlyC; smart01091 316057001009 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 316057001010 active site 316057001011 dimer interface [polypeptide binding]; other site 316057001012 metal binding site [ion binding]; metal-binding site 316057001013 shikimate kinase; Provisional; Region: PRK13946 316057001014 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 316057001015 ADP binding site [chemical binding]; other site 316057001016 magnesium binding site [ion binding]; other site 316057001017 putative shikimate binding site; other site 316057001018 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 316057001019 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 316057001020 active site 316057001021 DNA binding site [nucleotide binding] 316057001022 Int/Topo IB signature motif; other site 316057001023 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 316057001024 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 316057001025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 316057001026 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 316057001027 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 316057001028 SEC-C motif; Region: SEC-C; pfam02810 316057001029 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 316057001030 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 316057001031 Predicted membrane protein [Function unknown]; Region: COG4763 316057001032 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316057001033 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 316057001034 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 316057001035 ATP binding site [chemical binding]; other site 316057001036 putative Mg++ binding site [ion binding]; other site 316057001037 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 316057001038 nucleotide binding region [chemical binding]; other site 316057001039 ATP-binding site [chemical binding]; other site 316057001040 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 316057001041 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 316057001042 catalytic motif [active] 316057001043 Catalytic residue [active] 316057001044 aromatic amino acid exporter; Provisional; Region: PRK11689 316057001045 EamA-like transporter family; Region: EamA; pfam00892 316057001046 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 316057001047 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 316057001048 NAD(P) binding site [chemical binding]; other site 316057001049 homotetramer interface [polypeptide binding]; other site 316057001050 homodimer interface [polypeptide binding]; other site 316057001051 active site 316057001052 putative acyltransferase; Provisional; Region: PRK05790 316057001053 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 316057001054 dimer interface [polypeptide binding]; other site 316057001055 active site 316057001056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 316057001057 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 316057001058 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 316057001059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057001060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057001061 metal binding site [ion binding]; metal-binding site 316057001062 active site 316057001063 I-site; other site 316057001064 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 316057001065 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 316057001066 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 316057001067 Transglycosylase; Region: Transgly; cl17702 316057001068 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316057001069 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316057001070 substrate binding pocket [chemical binding]; other site 316057001071 chain length determination region; other site 316057001072 substrate-Mg2+ binding site; other site 316057001073 catalytic residues [active] 316057001074 aspartate-rich region 1; other site 316057001075 active site lid residues [active] 316057001076 aspartate-rich region 2; other site 316057001077 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 316057001078 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 316057001079 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 316057001080 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 316057001081 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 316057001082 FAD binding pocket [chemical binding]; other site 316057001083 FAD binding motif [chemical binding]; other site 316057001084 phosphate binding motif [ion binding]; other site 316057001085 beta-alpha-beta structure motif; other site 316057001086 NAD binding pocket [chemical binding]; other site 316057001087 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 316057001088 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 316057001089 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 316057001090 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057001091 EamA-like transporter family; Region: EamA; pfam00892 316057001092 EamA-like transporter family; Region: EamA; pfam00892 316057001093 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316057001094 metal binding site 2 [ion binding]; metal-binding site 316057001095 putative DNA binding helix; other site 316057001096 metal binding site 1 [ion binding]; metal-binding site 316057001097 dimer interface [polypeptide binding]; other site 316057001098 structural Zn2+ binding site [ion binding]; other site 316057001099 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 316057001100 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 316057001101 dimer interface [polypeptide binding]; other site 316057001102 active site 316057001103 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 316057001104 MutS domain I; Region: MutS_I; pfam01624 316057001105 MutS domain II; Region: MutS_II; pfam05188 316057001106 MutS domain III; Region: MutS_III; pfam05192 316057001107 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 316057001108 Walker A/P-loop; other site 316057001109 ATP binding site [chemical binding]; other site 316057001110 Q-loop/lid; other site 316057001111 ABC transporter signature motif; other site 316057001112 Walker B; other site 316057001113 D-loop; other site 316057001114 H-loop/switch region; other site 316057001115 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 316057001116 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 316057001117 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 316057001118 Porin subfamily; Region: Porin_2; pfam02530 316057001119 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057001120 MarR family; Region: MarR; pfam01047 316057001121 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 316057001122 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057001123 GAF domain; Region: GAF; cl17456 316057001124 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316057001125 Histidine kinase; Region: HisKA_2; pfam07568 316057001126 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 316057001127 ATP binding site [chemical binding]; other site 316057001128 Mg2+ binding site [ion binding]; other site 316057001129 G-X-G motif; other site 316057001130 Response regulator receiver domain; Region: Response_reg; pfam00072 316057001131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057001132 active site 316057001133 phosphorylation site [posttranslational modification] 316057001134 intermolecular recognition site; other site 316057001135 dimerization interface [polypeptide binding]; other site 316057001136 PRC-barrel domain; Region: PRC; pfam05239 316057001137 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316057001138 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 316057001139 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316057001140 LrgA family; Region: LrgA; pfam03788 316057001141 LrgB-like family; Region: LrgB; pfam04172 316057001142 Predicted esterase [General function prediction only]; Region: COG0400 316057001143 putative hydrolase; Provisional; Region: PRK11460 316057001144 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057001145 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057001146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057001147 dimer interface [polypeptide binding]; other site 316057001148 putative CheW interface [polypeptide binding]; other site 316057001149 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057001150 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 316057001151 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057001152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057001153 dimer interface [polypeptide binding]; other site 316057001154 putative CheW interface [polypeptide binding]; other site 316057001155 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316057001156 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316057001157 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 316057001158 Putative zinc-finger; Region: zf-HC2; pfam13490 316057001159 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 316057001160 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 316057001161 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057001162 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 316057001163 DNA binding residues [nucleotide binding] 316057001164 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 316057001165 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 316057001166 active site 316057001167 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316057001168 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 316057001169 dimer interface [polypeptide binding]; other site 316057001170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057001171 catalytic residue [active] 316057001172 glycogen synthase; Provisional; Region: PRK14099 316057001173 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 316057001174 ADP-binding pocket [chemical binding]; other site 316057001175 homodimer interface [polypeptide binding]; other site 316057001176 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 316057001177 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 316057001178 ligand binding site; other site 316057001179 oligomer interface; other site 316057001180 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 316057001181 dimer interface [polypeptide binding]; other site 316057001182 N-terminal domain interface [polypeptide binding]; other site 316057001183 sulfate 1 binding site; other site 316057001184 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 316057001185 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 316057001186 putative molybdopterin cofactor binding site [chemical binding]; other site 316057001187 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 316057001188 putative molybdopterin cofactor binding site; other site 316057001189 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 316057001190 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 316057001191 putative substrate binding site [chemical binding]; other site 316057001192 putative ATP binding site [chemical binding]; other site 316057001193 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 316057001194 Ligand Binding Site [chemical binding]; other site 316057001195 ChaB; Region: ChaB; pfam06150 316057001196 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316057001197 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057001198 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057001199 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316057001200 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 316057001201 carboxyltransferase (CT) interaction site; other site 316057001202 biotinylation site [posttranslational modification]; other site 316057001203 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 316057001204 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057001205 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057001206 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 316057001207 classical (c) SDRs; Region: SDR_c; cd05233 316057001208 NAD(P) binding site [chemical binding]; other site 316057001209 active site 316057001210 acyl-CoA synthetase; Validated; Region: PRK08316 316057001211 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057001212 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057001213 acyl-activating enzyme (AAE) consensus motif; other site 316057001214 acyl-activating enzyme (AAE) consensus motif; other site 316057001215 putative AMP binding site [chemical binding]; other site 316057001216 putative active site [active] 316057001217 putative CoA binding site [chemical binding]; other site 316057001218 enoyl-CoA hydratase; Provisional; Region: PRK06688 316057001219 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 316057001220 substrate binding site [chemical binding]; other site 316057001221 oxyanion hole (OAH) forming residues; other site 316057001222 trimer interface [polypeptide binding]; other site 316057001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057001224 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057001225 NAD(P) binding site [chemical binding]; other site 316057001226 active site 316057001227 isovaleryl-CoA dehydrogenase; Region: PLN02519 316057001228 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 316057001229 substrate binding site [chemical binding]; other site 316057001230 FAD binding site [chemical binding]; other site 316057001231 catalytic base [active] 316057001232 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057001233 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057001234 putative ligand binding site [chemical binding]; other site 316057001235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057001236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057001237 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 316057001238 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 316057001239 RNA binding surface [nucleotide binding]; other site 316057001240 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316057001241 active site 316057001242 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 316057001243 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316057001244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057001245 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 316057001246 DNA binding residues [nucleotide binding] 316057001247 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316057001248 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 316057001249 putative DNA binding site [nucleotide binding]; other site 316057001250 dimerization interface [polypeptide binding]; other site 316057001251 putative Zn2+ binding site [ion binding]; other site 316057001252 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316057001253 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 316057001254 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 316057001255 active site 316057001256 substrate-binding site [chemical binding]; other site 316057001257 metal-binding site [ion binding] 316057001258 ATP binding site [chemical binding]; other site 316057001259 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 316057001260 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 316057001261 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 316057001262 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057001263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057001264 active site 316057001265 phosphorylation site [posttranslational modification] 316057001266 intermolecular recognition site; other site 316057001267 dimerization interface [polypeptide binding]; other site 316057001268 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 316057001269 DNA binding site [nucleotide binding] 316057001270 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 316057001271 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 316057001272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057001273 HAMP domain; Region: HAMP; pfam00672 316057001274 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 316057001275 dimer interface [polypeptide binding]; other site 316057001276 phosphorylation site [posttranslational modification] 316057001277 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 316057001278 ATP binding site [chemical binding]; other site 316057001279 Mg2+ binding site [ion binding]; other site 316057001280 G-X-G motif; other site 316057001281 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 316057001282 Hpr binding site; other site 316057001283 active site 316057001284 homohexamer subunit interaction site [polypeptide binding]; other site 316057001285 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 316057001286 active pocket/dimerization site; other site 316057001287 active site 316057001288 phosphorylation site [posttranslational modification] 316057001289 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 316057001290 dimerization domain swap beta strand [polypeptide binding]; other site 316057001291 regulatory protein interface [polypeptide binding]; other site 316057001292 active site 316057001293 regulatory phosphorylation site [posttranslational modification]; other site 316057001294 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316057001295 GTP-binding protein LepA; Provisional; Region: PRK05433 316057001296 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 316057001297 G1 box; other site 316057001298 putative GEF interaction site [polypeptide binding]; other site 316057001299 GTP/Mg2+ binding site [chemical binding]; other site 316057001300 Switch I region; other site 316057001301 G2 box; other site 316057001302 G3 box; other site 316057001303 Switch II region; other site 316057001304 G4 box; other site 316057001305 G5 box; other site 316057001306 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 316057001307 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 316057001308 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 316057001309 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 316057001310 PemK-like protein; Region: PemK; pfam02452 316057001311 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 316057001312 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 316057001313 CysZ-like protein; Reviewed; Region: PRK12768 316057001314 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 316057001315 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057001316 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 316057001317 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 316057001318 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316057001319 minor groove reading motif; other site 316057001320 helix-hairpin-helix signature motif; other site 316057001321 substrate binding pocket [chemical binding]; other site 316057001322 active site 316057001323 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 316057001324 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 316057001325 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316057001326 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316057001327 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 316057001328 DNA binding site [nucleotide binding] 316057001329 active site 316057001330 phosphoglyceromutase; Provisional; Region: PRK05434 316057001331 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 316057001332 dihydrodipicolinate reductase; Provisional; Region: PRK00048 316057001333 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 316057001334 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 316057001335 Uncharacterized conserved protein [Function unknown]; Region: COG5470 316057001336 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 316057001337 active site 316057001338 dimer interface [polypeptide binding]; other site 316057001339 Predicted flavoprotein [General function prediction only]; Region: COG0431 316057001340 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316057001341 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 316057001342 S-adenosylmethionine binding site [chemical binding]; other site 316057001343 chaperone protein DnaJ; Provisional; Region: PRK10767 316057001344 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 316057001345 HSP70 interaction site [polypeptide binding]; other site 316057001346 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 316057001347 substrate binding site [polypeptide binding]; other site 316057001348 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 316057001349 Zn binding sites [ion binding]; other site 316057001350 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316057001351 dimer interface [polypeptide binding]; other site 316057001352 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 316057001353 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 316057001354 nucleotide binding site [chemical binding]; other site 316057001355 NEF interaction site [polypeptide binding]; other site 316057001356 SBD interface [polypeptide binding]; other site 316057001357 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 316057001358 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 316057001359 dimer interface [polypeptide binding]; other site 316057001360 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 316057001361 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 316057001362 ribonuclease PH; Reviewed; Region: rph; PRK00173 316057001363 Ribonuclease PH; Region: RNase_PH_bact; cd11362 316057001364 hexamer interface [polypeptide binding]; other site 316057001365 active site 316057001366 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 316057001367 active site 316057001368 dimerization interface [polypeptide binding]; other site 316057001369 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 316057001370 HemN C-terminal domain; Region: HemN_C; pfam06969 316057001371 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057001372 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 316057001373 putative ligand binding site [chemical binding]; other site 316057001374 Predicted methyltransferases [General function prediction only]; Region: COG0313 316057001375 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 316057001376 putative SAM binding site [chemical binding]; other site 316057001377 putative homodimer interface [polypeptide binding]; other site 316057001378 hypothetical protein; Reviewed; Region: PRK12497 316057001379 glutathione synthetase; Provisional; Region: PRK05246 316057001380 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 316057001381 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 316057001382 Autoinducer binding domain; Region: Autoind_bind; pfam03472 316057001383 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 316057001384 DNA binding residues [nucleotide binding] 316057001385 dimerization interface [polypeptide binding]; other site 316057001386 Autoinducer synthetase; Region: Autoind_synth; cl17404 316057001387 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 316057001388 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316057001389 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 316057001390 Walker A motif; other site 316057001391 ATP binding site [chemical binding]; other site 316057001392 Walker B motif; other site 316057001393 arginine finger; other site 316057001394 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 316057001395 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 316057001396 dimer interface [polypeptide binding]; other site 316057001397 phosphorylation site [posttranslational modification] 316057001398 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 316057001399 ATP binding site [chemical binding]; other site 316057001400 Mg2+ binding site [ion binding]; other site 316057001401 G-X-G motif; other site 316057001402 Response regulator receiver domain; Region: Response_reg; pfam00072 316057001403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057001404 active site 316057001405 phosphorylation site [posttranslational modification] 316057001406 intermolecular recognition site; other site 316057001407 dimerization interface [polypeptide binding]; other site 316057001408 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 316057001409 pantothenate kinase; Provisional; Region: PRK05439 316057001410 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 316057001411 ATP-binding site [chemical binding]; other site 316057001412 CoA-binding site [chemical binding]; other site 316057001413 Mg2+-binding site [ion binding]; other site 316057001414 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 316057001415 metal binding site [ion binding]; metal-binding site 316057001416 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 316057001417 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 316057001418 substrate binding site [chemical binding]; other site 316057001419 glutamase interaction surface [polypeptide binding]; other site 316057001420 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 316057001421 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 316057001422 catalytic residues [active] 316057001423 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 316057001424 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 316057001425 putative active site [active] 316057001426 oxyanion strand; other site 316057001427 catalytic triad [active] 316057001428 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 316057001429 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 316057001430 putative active site pocket [active] 316057001431 4-fold oligomerization interface [polypeptide binding]; other site 316057001432 metal binding residues [ion binding]; metal-binding site 316057001433 3-fold/trimer interface [polypeptide binding]; other site 316057001434 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 316057001435 active site 316057001436 HslU subunit interaction site [polypeptide binding]; other site 316057001437 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 316057001438 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 316057001439 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057001440 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 316057001441 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 316057001442 Walker A motif; other site 316057001443 ATP binding site [chemical binding]; other site 316057001444 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 316057001445 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316057001446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 316057001447 Smr domain; Region: Smr; pfam01713 316057001448 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 316057001449 MltA specific insert domain; Region: MltA; smart00925 316057001450 3D domain; Region: 3D; pfam06725 316057001451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 316057001452 preprotein translocase subunit SecB; Validated; Region: PRK05751 316057001453 SecA binding site; other site 316057001454 Preprotein binding site; other site 316057001455 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 316057001456 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 316057001457 active site 316057001458 catalytic site [active] 316057001459 substrate binding site [chemical binding]; other site 316057001460 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 316057001461 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 316057001462 CoA-binding site [chemical binding]; other site 316057001463 ATP-binding [chemical binding]; other site 316057001464 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 316057001465 active site 316057001466 dimer interface [polypeptide binding]; other site 316057001467 PEP synthetase regulatory protein; Provisional; Region: PRK05339 316057001468 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 316057001469 transcription termination factor Rho; Provisional; Region: rho; PRK09376 316057001470 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 316057001471 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 316057001472 RNA binding site [nucleotide binding]; other site 316057001473 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 316057001474 multimer interface [polypeptide binding]; other site 316057001475 Walker A motif; other site 316057001476 ATP binding site [chemical binding]; other site 316057001477 Walker B motif; other site 316057001478 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 316057001479 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 316057001480 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 316057001481 GTP/Mg2+ binding site [chemical binding]; other site 316057001482 G5 box; other site 316057001483 trmE is a tRNA modification GTPase; Region: trmE; cd04164 316057001484 G1 box; other site 316057001485 G1 box; other site 316057001486 GTP/Mg2+ binding site [chemical binding]; other site 316057001487 Switch I region; other site 316057001488 Switch I region; other site 316057001489 G2 box; other site 316057001490 G2 box; other site 316057001491 Switch II region; other site 316057001492 G3 box; other site 316057001493 G3 box; other site 316057001494 Switch II region; other site 316057001495 G4 box; other site 316057001496 G5 box; other site 316057001497 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 316057001498 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 316057001499 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316057001500 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 316057001501 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 316057001502 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 316057001503 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 316057001504 S-adenosylmethionine binding site [chemical binding]; other site 316057001505 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 316057001506 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 316057001507 P-loop; other site 316057001508 Magnesium ion binding site [ion binding]; other site 316057001509 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 316057001510 Magnesium ion binding site [ion binding]; other site 316057001511 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 316057001512 ParB-like nuclease domain; Region: ParB; smart00470 316057001513 KorB domain; Region: KorB; pfam08535 316057001514 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 316057001515 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 316057001516 Lipopolysaccharide-assembly; Region: LptE; cl01125 316057001517 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 316057001518 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 316057001519 HIGH motif; other site 316057001520 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316057001521 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316057001522 active site 316057001523 KMSKS motif; other site 316057001524 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 316057001525 tRNA binding surface [nucleotide binding]; other site 316057001526 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 316057001527 dimerization interface [polypeptide binding]; other site 316057001528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057001529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057001530 metal binding site [ion binding]; metal-binding site 316057001531 active site 316057001532 I-site; other site 316057001533 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 316057001534 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316057001535 catalytic residue [active] 316057001536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 316057001537 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057001538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057001539 active site 316057001540 phosphorylation site [posttranslational modification] 316057001541 intermolecular recognition site; other site 316057001542 dimerization interface [polypeptide binding]; other site 316057001543 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 316057001544 DNA binding site [nucleotide binding] 316057001545 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057001546 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 316057001547 ligand binding site [chemical binding]; other site 316057001548 flexible hinge region; other site 316057001549 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 316057001550 putative catalytic site [active] 316057001551 putative phosphate binding site [ion binding]; other site 316057001552 active site 316057001553 metal binding site A [ion binding]; metal-binding site 316057001554 DNA binding site [nucleotide binding] 316057001555 putative AP binding site [nucleotide binding]; other site 316057001556 putative metal binding site B [ion binding]; other site 316057001557 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 316057001558 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 316057001559 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 316057001560 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 316057001561 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 316057001562 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 316057001563 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 316057001564 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 316057001565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057001566 homodimer interface [polypeptide binding]; other site 316057001567 catalytic residue [active] 316057001568 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 316057001569 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 316057001570 putative active site [active] 316057001571 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 316057001572 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 316057001573 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316057001574 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 316057001575 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 316057001576 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316057001577 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 316057001578 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 316057001579 active site 316057001580 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 316057001581 catalytic triad [active] 316057001582 dimer interface [polypeptide binding]; other site 316057001583 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 316057001584 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057001585 Uncharacterized conserved protein [Function unknown]; Region: COG2835 316057001586 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 316057001587 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 316057001588 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 316057001589 catalytic residues [active] 316057001590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057001591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057001592 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 316057001593 putative dimerization interface [polypeptide binding]; other site 316057001594 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 316057001595 dimerization interface [polypeptide binding]; other site 316057001596 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 316057001597 Ribulose bisphosphate carboxylase like proteins from phototrophic bacteria; Region: RLP_Photo; cd08208 316057001598 dimer interface [polypeptide binding]; other site 316057001599 active site 316057001600 catalytic residue [active] 316057001601 metal binding site [ion binding]; metal-binding site 316057001602 Uncharacterized conserved protein [Function unknown]; Region: COG0432 316057001603 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 316057001604 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 316057001605 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 316057001606 HemY protein N-terminus; Region: HemY_N; pfam07219 316057001607 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 316057001608 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 316057001609 active site 316057001610 UGMP family protein; Validated; Region: PRK09604 316057001611 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 316057001612 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316057001613 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 316057001614 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 316057001615 EVE domain; Region: EVE; pfam01878 316057001616 Predicted methyltransferase [General function prediction only]; Region: COG3897 316057001617 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 316057001618 acetyl-CoA synthetase; Provisional; Region: PRK00174 316057001619 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 316057001620 active site 316057001621 CoA binding site [chemical binding]; other site 316057001622 acyl-activating enzyme (AAE) consensus motif; other site 316057001623 AMP binding site [chemical binding]; other site 316057001624 acetate binding site [chemical binding]; other site 316057001625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057001626 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057001627 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316057001628 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057001629 ligand binding site [chemical binding]; other site 316057001630 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 316057001631 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 316057001632 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 316057001633 catalytic loop [active] 316057001634 iron binding site [ion binding]; other site 316057001635 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 316057001636 L-aspartate oxidase; Provisional; Region: PRK06175 316057001637 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316057001638 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 316057001639 putative SdhC subunit interface [polypeptide binding]; other site 316057001640 putative proximal heme binding site [chemical binding]; other site 316057001641 putative Iron-sulfur protein interface [polypeptide binding]; other site 316057001642 putative proximal quinone binding site; other site 316057001643 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 316057001644 Iron-sulfur protein interface; other site 316057001645 proximal quinone binding site [chemical binding]; other site 316057001646 SdhD (CybS) interface [polypeptide binding]; other site 316057001647 proximal heme binding site [chemical binding]; other site 316057001648 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 316057001649 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 316057001650 malonyl-CoA synthase; Validated; Region: PRK07514 316057001651 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 316057001652 acyl-activating enzyme (AAE) consensus motif; other site 316057001653 active site 316057001654 AMP binding site [chemical binding]; other site 316057001655 CoA binding site [chemical binding]; other site 316057001656 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 316057001657 classical (c) SDRs; Region: SDR_c; cd05233 316057001658 NAD(P) binding site [chemical binding]; other site 316057001659 active site 316057001660 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 316057001661 Fasciclin domain; Region: Fasciclin; pfam02469 316057001662 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 316057001663 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 316057001664 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 316057001665 Moco binding site; other site 316057001666 metal coordination site [ion binding]; other site 316057001667 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 316057001668 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 316057001669 E-class dimer interface [polypeptide binding]; other site 316057001670 P-class dimer interface [polypeptide binding]; other site 316057001671 active site 316057001672 Cu2+ binding site [ion binding]; other site 316057001673 Zn2+ binding site [ion binding]; other site 316057001674 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 316057001675 tartrate dehydrogenase; Region: TTC; TIGR02089 316057001676 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 316057001677 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 316057001678 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316057001679 hypothetical protein; Provisional; Region: PRK05208 316057001680 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 316057001681 active site clefts [active] 316057001682 zinc binding site [ion binding]; other site 316057001683 dimer interface [polypeptide binding]; other site 316057001684 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 316057001685 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 316057001686 dimerization interface [polypeptide binding]; other site 316057001687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057001688 dimer interface [polypeptide binding]; other site 316057001689 putative CheW interface [polypeptide binding]; other site 316057001690 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 316057001691 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 316057001692 substrate binding site [chemical binding]; other site 316057001693 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 316057001694 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 316057001695 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 316057001696 substrate binding site [chemical binding]; other site 316057001697 ligand binding site [chemical binding]; other site 316057001698 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 316057001699 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 316057001700 RimM N-terminal domain; Region: RimM; pfam01782 316057001701 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 316057001702 PRC-barrel domain; Region: PRC; pfam05239 316057001703 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 316057001704 signal recognition particle protein; Provisional; Region: PRK10867 316057001705 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 316057001706 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 316057001707 P loop; other site 316057001708 GTP binding site [chemical binding]; other site 316057001709 Signal peptide binding domain; Region: SRP_SPB; pfam02978 316057001710 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 316057001711 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 316057001712 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 316057001713 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 316057001714 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 316057001715 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316057001716 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316057001717 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 316057001718 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316057001719 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 316057001720 FeS/SAM binding site; other site 316057001721 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316057001722 active site 316057001723 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316057001724 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 316057001725 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 316057001726 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 316057001727 P loop; other site 316057001728 GTP binding site [chemical binding]; other site 316057001729 intracellular septation protein A; Reviewed; Region: PRK00259 316057001730 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 316057001731 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 316057001732 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 316057001733 catalytic residues [active] 316057001734 central insert; other site 316057001735 Heme exporter protein D (CcmD); Region: CcmD; cl11475 316057001736 heme exporter protein CcmC; Region: ccmC; TIGR01191 316057001737 heme exporter protein CcmB; Region: ccmB; TIGR01190 316057001738 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 316057001739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057001740 Walker A/P-loop; other site 316057001741 ATP binding site [chemical binding]; other site 316057001742 Q-loop/lid; other site 316057001743 ABC transporter signature motif; other site 316057001744 Walker B; other site 316057001745 D-loop; other site 316057001746 H-loop/switch region; other site 316057001747 aconitate hydratase; Validated; Region: PRK09277 316057001748 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 316057001749 substrate binding site [chemical binding]; other site 316057001750 ligand binding site [chemical binding]; other site 316057001751 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 316057001752 substrate binding site [chemical binding]; other site 316057001753 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 316057001754 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 316057001755 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 316057001756 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057001757 Coenzyme A binding pocket [chemical binding]; other site 316057001758 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 316057001759 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 316057001760 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 316057001761 FtsX-like permease family; Region: FtsX; pfam02687 316057001762 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316057001763 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 316057001764 Walker A/P-loop; other site 316057001765 ATP binding site [chemical binding]; other site 316057001766 Q-loop/lid; other site 316057001767 ABC transporter signature motif; other site 316057001768 Walker B; other site 316057001769 D-loop; other site 316057001770 H-loop/switch region; other site 316057001771 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 316057001772 active site 316057001773 catalytic triad [active] 316057001774 oxyanion hole [active] 316057001775 switch loop; other site 316057001776 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 316057001777 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316057001778 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316057001779 Predicted ATPase [General function prediction only]; Region: COG1485 316057001780 malate dehydrogenase; Reviewed; Region: PRK06223 316057001781 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 316057001782 NAD(P) binding site [chemical binding]; other site 316057001783 dimer interface [polypeptide binding]; other site 316057001784 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316057001785 substrate binding site [chemical binding]; other site 316057001786 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 316057001787 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 316057001788 CoA-ligase; Region: Ligase_CoA; pfam00549 316057001789 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 316057001790 putative active site [active] 316057001791 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 316057001792 CoA binding domain; Region: CoA_binding; smart00881 316057001793 CoA-ligase; Region: Ligase_CoA; pfam00549 316057001794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057001795 Coenzyme A binding pocket [chemical binding]; other site 316057001796 MarR family; Region: MarR_2; cl17246 316057001797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057001798 EamA-like transporter family; Region: EamA; pfam00892 316057001799 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316057001800 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 316057001801 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 316057001802 TPP-binding site [chemical binding]; other site 316057001803 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 316057001804 dimer interface [polypeptide binding]; other site 316057001805 PYR/PP interface [polypeptide binding]; other site 316057001806 TPP binding site [chemical binding]; other site 316057001807 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 316057001808 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 316057001809 E3 interaction surface; other site 316057001810 lipoyl attachment site [posttranslational modification]; other site 316057001811 e3 binding domain; Region: E3_binding; pfam02817 316057001812 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316057001813 MAPEG family; Region: MAPEG; cl09190 316057001814 short chain dehydrogenase; Provisional; Region: PRK06123 316057001815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057001816 NAD(P) binding site [chemical binding]; other site 316057001817 active site 316057001818 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 316057001819 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 316057001820 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 316057001821 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057001822 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057001823 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316057001824 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 316057001825 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 316057001826 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 316057001827 active site 316057001828 DNA binding site [nucleotide binding] 316057001829 Int/Topo IB signature motif; other site 316057001830 primosome assembly protein PriA; Validated; Region: PRK05580 316057001831 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 316057001832 ATP binding site [chemical binding]; other site 316057001833 putative Mg++ binding site [ion binding]; other site 316057001834 nucleotide binding region [chemical binding]; other site 316057001835 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316057001836 ATP-binding site [chemical binding]; other site 316057001837 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 316057001838 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316057001839 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 316057001840 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 316057001841 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 316057001842 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316057001843 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 316057001844 beta subunit interaction interface [polypeptide binding]; other site 316057001845 Walker A motif; other site 316057001846 ATP binding site [chemical binding]; other site 316057001847 Walker B motif; other site 316057001848 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316057001849 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 316057001850 core domain interface [polypeptide binding]; other site 316057001851 delta subunit interface [polypeptide binding]; other site 316057001852 epsilon subunit interface [polypeptide binding]; other site 316057001853 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 316057001854 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316057001855 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 316057001856 alpha subunit interaction interface [polypeptide binding]; other site 316057001857 Walker A motif; other site 316057001858 ATP binding site [chemical binding]; other site 316057001859 Walker B motif; other site 316057001860 inhibitor binding site; inhibition site 316057001861 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316057001862 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 316057001863 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 316057001864 gamma subunit interface [polypeptide binding]; other site 316057001865 LBP interface [polypeptide binding]; other site 316057001866 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 316057001867 putative active site [active] 316057001868 Ap4A binding site [chemical binding]; other site 316057001869 nudix motif; other site 316057001870 putative metal binding site [ion binding]; other site 316057001871 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 316057001872 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316057001873 NAD binding site [chemical binding]; other site 316057001874 putative substrate binding site 2 [chemical binding]; other site 316057001875 putative substrate binding site 1 [chemical binding]; other site 316057001876 active site 316057001877 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 316057001878 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 316057001879 putative active site [active] 316057001880 Ap4A binding site [chemical binding]; other site 316057001881 nudix motif; other site 316057001882 putative metal binding site [ion binding]; other site 316057001883 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 316057001884 NodB motif; other site 316057001885 putative active site [active] 316057001886 putative catalytic site [active] 316057001887 Zn binding site [ion binding]; other site 316057001888 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 316057001889 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 316057001890 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 316057001891 protein binding site [polypeptide binding]; other site 316057001892 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 316057001893 Catalytic dyad [active] 316057001894 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 316057001895 Peptidase family M23; Region: Peptidase_M23; pfam01551 316057001896 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 316057001897 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 316057001898 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 316057001899 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 316057001900 active site 316057001901 (T/H)XGH motif; other site 316057001902 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 316057001903 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 316057001904 putative catalytic cysteine [active] 316057001905 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 316057001906 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 316057001907 gamma-glutamyl kinase; Provisional; Region: PRK05429 316057001908 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 316057001909 nucleotide binding site [chemical binding]; other site 316057001910 homotetrameric interface [polypeptide binding]; other site 316057001911 putative phosphate binding site [ion binding]; other site 316057001912 putative allosteric binding site; other site 316057001913 PUA domain; Region: PUA; pfam01472 316057001914 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057001915 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057001916 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 316057001917 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 316057001918 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 316057001919 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 316057001920 active site 316057001921 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 316057001922 putative catalytic site [active] 316057001923 putative phosphate binding site [ion binding]; other site 316057001924 active site 316057001925 metal binding site A [ion binding]; metal-binding site 316057001926 DNA binding site [nucleotide binding] 316057001927 putative AP binding site [nucleotide binding]; other site 316057001928 putative metal binding site B [ion binding]; other site 316057001929 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 316057001930 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 316057001931 active site 2 [active] 316057001932 active site 1 [active] 316057001933 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057001934 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057001935 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 316057001936 acyl-activating enzyme (AAE) consensus motif; other site 316057001937 acyl-activating enzyme (AAE) consensus motif; other site 316057001938 putative AMP binding site [chemical binding]; other site 316057001939 putative active site [active] 316057001940 putative CoA binding site [chemical binding]; other site 316057001941 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057001942 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057001943 putative ligand binding site [chemical binding]; other site 316057001944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057001945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057001946 GTPase CgtA; Reviewed; Region: obgE; PRK12299 316057001947 GTP1/OBG; Region: GTP1_OBG; pfam01018 316057001948 Obg GTPase; Region: Obg; cd01898 316057001949 G1 box; other site 316057001950 GTP/Mg2+ binding site [chemical binding]; other site 316057001951 Switch I region; other site 316057001952 G2 box; other site 316057001953 G3 box; other site 316057001954 Switch II region; other site 316057001955 G4 box; other site 316057001956 G5 box; other site 316057001957 EamA-like transporter family; Region: EamA; pfam00892 316057001958 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057001959 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316057001960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 316057001961 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 316057001962 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 316057001963 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 316057001964 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316057001965 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316057001966 nucleotide binding site [chemical binding]; other site 316057001967 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; cd01983 316057001968 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 316057001969 AAA domain; Region: AAA_12; pfam13087 316057001970 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 316057001971 putative active site [active] 316057001972 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 316057001973 nucleotide binding site [chemical binding]; other site 316057001974 substrate binding site [chemical binding]; other site 316057001975 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 316057001976 putative nucleotide binding site [chemical binding]; other site 316057001977 putative substrate binding site [chemical binding]; other site 316057001978 metabolite-proton symporter; Region: 2A0106; TIGR00883 316057001979 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 316057001980 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316057001981 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 316057001982 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 316057001983 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 316057001984 D-pathway; other site 316057001985 Putative ubiquinol binding site [chemical binding]; other site 316057001986 Low-spin heme (heme b) binding site [chemical binding]; other site 316057001987 Putative water exit pathway; other site 316057001988 Binuclear center (heme o3/CuB) [ion binding]; other site 316057001989 K-pathway; other site 316057001990 Putative proton exit pathway; other site 316057001991 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 316057001992 Subunit I/III interface [polypeptide binding]; other site 316057001993 Subunit III/IV interface [polypeptide binding]; other site 316057001994 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 316057001995 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 316057001996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057001997 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 316057001998 dimer interface [polypeptide binding]; other site 316057001999 phosphorylation site [posttranslational modification] 316057002000 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 316057002001 ATP binding site [chemical binding]; other site 316057002002 Mg2+ binding site [ion binding]; other site 316057002003 G-X-G motif; other site 316057002004 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 316057002005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057002006 active site 316057002007 phosphorylation site [posttranslational modification] 316057002008 intermolecular recognition site; other site 316057002009 dimerization interface [polypeptide binding]; other site 316057002010 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057002011 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057002012 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 316057002013 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057002014 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 316057002015 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 316057002016 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 316057002017 carboxyltransferase (CT) interaction site; other site 316057002018 biotinylation site [posttranslational modification]; other site 316057002019 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 316057002020 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057002021 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316057002022 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316057002023 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316057002024 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 316057002025 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 316057002026 active site 316057002027 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 316057002028 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316057002029 Bacterial transcriptional regulator; Region: IclR; pfam01614 316057002030 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 316057002031 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 316057002032 putative active site [active] 316057002033 putative catalytic site [active] 316057002034 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057002035 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057002036 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316057002037 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 316057002038 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 316057002039 DctM-like transporters; Region: DctM; pfam06808 316057002040 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 316057002041 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057002042 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057002043 active site 316057002044 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 316057002045 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 316057002046 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 316057002047 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 316057002048 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 316057002049 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 316057002050 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316057002051 Walker A motif; other site 316057002052 ATP binding site [chemical binding]; other site 316057002053 Walker B motif; other site 316057002054 arginine finger; other site 316057002055 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316057002056 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057002057 hydroperoxidase II; Provisional; Region: katE; PRK11249 316057002058 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 316057002059 heme binding pocket [chemical binding]; other site 316057002060 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 316057002061 domain interactions; other site 316057002062 Cytochrome c553 [Energy production and conversion]; Region: COG2863 316057002063 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316057002064 Cytochrome c; Region: Cytochrom_C; cl11414 316057002065 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 316057002066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057002067 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 316057002068 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 316057002069 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 316057002070 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 316057002071 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 316057002072 catalytic loop [active] 316057002073 iron binding site [ion binding]; other site 316057002074 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316057002075 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 316057002076 [4Fe-4S] binding site [ion binding]; other site 316057002077 molybdopterin cofactor binding site; other site 316057002078 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 316057002079 molybdopterin cofactor binding site; other site 316057002080 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 316057002081 putative dimer interface [polypeptide binding]; other site 316057002082 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 316057002083 SLBB domain; Region: SLBB; pfam10531 316057002084 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 316057002085 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 316057002086 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316057002087 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057002088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057002089 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 316057002090 dimerization interface [polypeptide binding]; other site 316057002091 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 316057002092 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 316057002093 S-adenosylmethionine binding site [chemical binding]; other site 316057002094 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 316057002095 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316057002096 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 316057002097 ABC-ATPase subunit interface; other site 316057002098 dimer interface [polypeptide binding]; other site 316057002099 putative PBP binding regions; other site 316057002100 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 316057002101 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316057002102 Walker A/P-loop; other site 316057002103 ATP binding site [chemical binding]; other site 316057002104 Q-loop/lid; other site 316057002105 ABC transporter signature motif; other site 316057002106 Walker B; other site 316057002107 D-loop; other site 316057002108 H-loop/switch region; other site 316057002109 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 316057002110 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 316057002111 intersubunit interface [polypeptide binding]; other site 316057002112 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 316057002113 cobyric acid synthase; Provisional; Region: PRK00784 316057002114 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 316057002115 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 316057002116 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 316057002117 catalytic triad [active] 316057002118 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 316057002119 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 316057002120 homodimer interface [polypeptide binding]; other site 316057002121 Walker A motif; other site 316057002122 ATP binding site [chemical binding]; other site 316057002123 hydroxycobalamin binding site [chemical binding]; other site 316057002124 Walker B motif; other site 316057002125 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 316057002126 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316057002127 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316057002128 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 316057002129 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 316057002130 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 316057002131 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 316057002132 homotrimer interface [polypeptide binding]; other site 316057002133 Walker A motif; other site 316057002134 GTP binding site [chemical binding]; other site 316057002135 Walker B motif; other site 316057002136 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 316057002137 dimer interface [polypeptide binding]; other site 316057002138 [2Fe-2S] cluster binding site [ion binding]; other site 316057002139 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 316057002140 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 316057002141 active site pocket [active] 316057002142 putative dimer interface [polypeptide binding]; other site 316057002143 putative cataytic base [active] 316057002144 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 316057002145 putative FMN binding site [chemical binding]; other site 316057002146 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 316057002147 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 316057002148 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 316057002149 GIY-YIG motif/motif A; other site 316057002150 putative active site [active] 316057002151 putative metal binding site [ion binding]; other site 316057002152 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 316057002153 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 316057002154 catalytic core [active] 316057002155 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 316057002156 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 316057002157 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057002158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057002159 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057002160 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 316057002161 dimerization interface [polypeptide binding]; other site 316057002162 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 316057002163 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 316057002164 dihydrodipicolinate synthase; Region: dapA; TIGR00674 316057002165 dimer interface [polypeptide binding]; other site 316057002166 active site 316057002167 catalytic residue [active] 316057002168 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 316057002169 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 316057002170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057002171 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316057002172 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 316057002173 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 316057002174 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 316057002175 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 316057002176 Ligand Binding Site [chemical binding]; other site 316057002177 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 316057002178 GAF domain; Region: GAF_3; pfam13492 316057002179 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 316057002180 dimer interface [polypeptide binding]; other site 316057002181 phosphorylation site [posttranslational modification] 316057002182 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 316057002183 ATP binding site [chemical binding]; other site 316057002184 Mg2+ binding site [ion binding]; other site 316057002185 G-X-G motif; other site 316057002186 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057002187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057002188 active site 316057002189 phosphorylation site [posttranslational modification] 316057002190 intermolecular recognition site; other site 316057002191 dimerization interface [polypeptide binding]; other site 316057002192 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 316057002193 DNA binding site [nucleotide binding] 316057002194 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 316057002195 active site 316057002196 phosphorylation site [posttranslational modification] 316057002197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 316057002198 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 316057002199 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 316057002200 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 316057002201 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 316057002202 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057002203 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057002204 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 316057002205 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 316057002206 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057002207 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 316057002208 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 316057002209 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 316057002210 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 316057002211 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 316057002212 Phasin protein; Region: Phasin_2; cl11491 316057002213 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 316057002214 Transmembrane secretion effector; Region: MFS_3; pfam05977 316057002215 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 316057002216 putative substrate translocation pore; other site 316057002217 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 316057002218 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057002219 Cytochrome P450; Region: p450; cl12078 316057002220 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 316057002221 putative metal binding site [ion binding]; other site 316057002222 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 316057002223 classical (c) SDRs; Region: SDR_c; cd05233 316057002224 NAD(P) binding site [chemical binding]; other site 316057002225 active site 316057002226 SnoaL-like domain; Region: SnoaL_2; pfam12680 316057002227 enoyl-CoA hydratase; Provisional; Region: PRK06210 316057002228 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 316057002229 substrate binding site [chemical binding]; other site 316057002230 oxyanion hole (OAH) forming residues; other site 316057002231 trimer interface [polypeptide binding]; other site 316057002232 YGGT family; Region: YGGT; cl00508 316057002233 hypothetical protein; Validated; Region: PRK01310 316057002234 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 316057002235 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 316057002236 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 316057002237 homodimer interface [polypeptide binding]; other site 316057002238 NADP binding site [chemical binding]; other site 316057002239 substrate binding site [chemical binding]; other site 316057002240 hypothetical protein; Provisional; Region: PRK08262 316057002241 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 316057002242 metal binding site [ion binding]; metal-binding site 316057002243 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 316057002244 dimer interface [polypeptide binding]; other site 316057002245 substrate binding site [chemical binding]; other site 316057002246 metal binding sites [ion binding]; metal-binding site 316057002247 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057002248 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 316057002249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057002250 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 316057002251 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 316057002252 G1 box; other site 316057002253 putative GEF interaction site [polypeptide binding]; other site 316057002254 GTP/Mg2+ binding site [chemical binding]; other site 316057002255 Switch I region; other site 316057002256 G2 box; other site 316057002257 G3 box; other site 316057002258 Switch II region; other site 316057002259 G4 box; other site 316057002260 G5 box; other site 316057002261 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 316057002262 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 316057002263 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316057002264 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 316057002265 N-terminal plug; other site 316057002266 ligand-binding site [chemical binding]; other site 316057002267 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 316057002268 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 316057002269 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316057002270 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 316057002271 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 316057002272 aromatic arch; other site 316057002273 DCoH dimer interaction site [polypeptide binding]; other site 316057002274 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 316057002275 DCoH tetramer interaction site [polypeptide binding]; other site 316057002276 substrate binding site [chemical binding]; other site 316057002277 Uncharacterized conserved protein [Function unknown]; Region: COG3339 316057002278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057002279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057002280 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 316057002281 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316057002282 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 316057002283 NAD(P) binding site [chemical binding]; other site 316057002284 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 316057002285 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 316057002286 FeS/SAM binding site; other site 316057002287 HD domain; Region: HD_3; pfam13023 316057002288 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 316057002289 active site 316057002290 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 316057002291 argininosuccinate synthase; Provisional; Region: PRK13820 316057002292 ANP binding site [chemical binding]; other site 316057002293 Substrate Binding Site II [chemical binding]; other site 316057002294 Substrate Binding Site I [chemical binding]; other site 316057002295 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 316057002296 Alkaline phosphatase homologues; Region: alkPPc; smart00098 316057002297 active site 316057002298 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 316057002299 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316057002300 Catalytic site; other site 316057002301 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 316057002302 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 316057002303 16S rRNA methyltransferase B; Provisional; Region: PRK10901 316057002304 NusB family; Region: NusB; pfam01029 316057002305 putative RNA binding site [nucleotide binding]; other site 316057002306 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 316057002307 S-adenosylmethionine binding site [chemical binding]; other site 316057002308 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 316057002309 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 316057002310 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 316057002311 purine monophosphate binding site [chemical binding]; other site 316057002312 dimer interface [polypeptide binding]; other site 316057002313 putative catalytic residues [active] 316057002314 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 316057002315 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 316057002316 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 316057002317 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316057002318 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 316057002319 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 316057002320 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316057002321 short chain dehydrogenase; Provisional; Region: PRK08278 316057002322 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 316057002323 NAD(P) binding site [chemical binding]; other site 316057002324 homodimer interface [polypeptide binding]; other site 316057002325 active site 316057002326 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057002327 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 316057002328 putative C-terminal domain interface [polypeptide binding]; other site 316057002329 putative GSH binding site (G-site) [chemical binding]; other site 316057002330 putative dimer interface [polypeptide binding]; other site 316057002331 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 316057002332 putative N-terminal domain interface [polypeptide binding]; other site 316057002333 putative dimer interface [polypeptide binding]; other site 316057002334 putative substrate binding pocket (H-site) [chemical binding]; other site 316057002335 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 316057002336 GIY-YIG motif/motif A; other site 316057002337 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 316057002338 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 316057002339 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 316057002340 putative catalytic residue [active] 316057002341 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316057002342 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 316057002343 putative NAD(P) binding site [chemical binding]; other site 316057002344 active site 316057002345 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 316057002346 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316057002347 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316057002348 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 316057002349 Low-spin heme binding site [chemical binding]; other site 316057002350 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 316057002351 Putative water exit pathway; other site 316057002352 Binuclear center (active site) [active] 316057002353 Putative proton exit pathway; other site 316057002354 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 316057002355 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 316057002356 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 316057002357 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 316057002358 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316057002359 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316057002360 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 316057002361 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316057002362 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 316057002363 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 316057002364 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 316057002365 FixH; Region: FixH; pfam05751 316057002366 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 316057002367 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 316057002368 metal-binding site [ion binding] 316057002369 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057002370 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316057002371 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 316057002372 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316057002373 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 316057002374 putative DNA binding site [nucleotide binding]; other site 316057002375 putative Zn2+ binding site [ion binding]; other site 316057002376 AsnC family; Region: AsnC_trans_reg; pfam01037 316057002377 circadian clock protein KaiC; Reviewed; Region: PRK09302 316057002378 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 316057002379 Walker A motif; other site 316057002380 ATP binding site [chemical binding]; other site 316057002381 Walker B motif; other site 316057002382 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 316057002383 Walker A motif; other site 316057002384 ATP binding site [chemical binding]; other site 316057002385 Walker B motif; other site 316057002386 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 316057002387 tetramer interface [polypeptide binding]; other site 316057002388 dimer interface [polypeptide binding]; other site 316057002389 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 316057002390 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316057002391 putative active site [active] 316057002392 heme pocket [chemical binding]; other site 316057002393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316057002394 HWE histidine kinase; Region: HWE_HK; smart00911 316057002395 Transposase; Region: HTH_Tnp_1; pfam01527 316057002396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 316057002397 Integrase core domain; Region: rve; pfam00665 316057002398 Integrase core domain; Region: rve_3; pfam13683 316057002399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057002400 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316057002401 NAD(P) binding site [chemical binding]; other site 316057002402 active site 316057002403 Bacterial sugar transferase; Region: Bac_transf; pfam02397 316057002404 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 316057002405 putative glycosyl transferase; Provisional; Region: PRK10307 316057002406 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 316057002407 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 316057002408 NADP binding site [chemical binding]; other site 316057002409 active site 316057002410 putative substrate binding site [chemical binding]; other site 316057002411 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 316057002412 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 316057002413 NAD(P) binding site [chemical binding]; other site 316057002414 homodimer interface [polypeptide binding]; other site 316057002415 substrate binding site [chemical binding]; other site 316057002416 active site 316057002417 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 316057002418 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 316057002419 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 316057002420 active site 316057002421 homodimer interface [polypeptide binding]; other site 316057002422 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316057002423 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316057002424 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316057002425 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 316057002426 S-adenosylmethionine binding site [chemical binding]; other site 316057002427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 316057002428 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 316057002429 active site 316057002430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057002431 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 316057002432 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316057002433 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 316057002434 S-adenosylmethionine binding site [chemical binding]; other site 316057002435 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 316057002436 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 316057002437 Ligand binding site; other site 316057002438 DXD motif; other site 316057002439 Putative Catalytic site; other site 316057002440 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 316057002441 HTH-like domain; Region: HTH_21; pfam13276 316057002442 Integrase core domain; Region: rve; pfam00665 316057002443 Integrase core domain; Region: rve_3; pfam13683 316057002444 hypothetical protein; Provisional; Region: PRK11770 316057002445 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316057002446 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 316057002447 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316057002448 PAS domain; Region: PAS; smart00091 316057002449 PAS fold; Region: PAS_7; pfam12860 316057002450 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057002451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057002452 metal binding site [ion binding]; metal-binding site 316057002453 active site 316057002454 I-site; other site 316057002455 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 316057002456 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057002457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057002458 active site 316057002459 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316057002460 Cytochrome c; Region: Cytochrom_C; cl11414 316057002461 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057002462 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057002463 metal binding site [ion binding]; metal-binding site 316057002464 active site 316057002465 I-site; other site 316057002466 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 316057002467 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316057002468 classical (c) SDRs; Region: SDR_c; cd05233 316057002469 NAD(P) binding site [chemical binding]; other site 316057002470 active site 316057002471 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057002472 Cytochrome P450; Region: p450; cl12078 316057002473 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316057002474 cyclase homology domain; Region: CHD; cd07302 316057002475 nucleotidyl binding site; other site 316057002476 metal binding site [ion binding]; metal-binding site 316057002477 dimer interface [polypeptide binding]; other site 316057002478 heat shock protein HtpX; Provisional; Region: PRK01345 316057002479 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316057002480 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 316057002481 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057002482 TM-ABC transporter signature motif; other site 316057002483 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057002484 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057002485 TM-ABC transporter signature motif; other site 316057002486 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057002487 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057002488 Walker A/P-loop; other site 316057002489 ATP binding site [chemical binding]; other site 316057002490 Q-loop/lid; other site 316057002491 ABC transporter signature motif; other site 316057002492 Walker B; other site 316057002493 D-loop; other site 316057002494 H-loop/switch region; other site 316057002495 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057002496 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057002497 Walker A/P-loop; other site 316057002498 ATP binding site [chemical binding]; other site 316057002499 Q-loop/lid; other site 316057002500 ABC transporter signature motif; other site 316057002501 Walker B; other site 316057002502 D-loop; other site 316057002503 H-loop/switch region; other site 316057002504 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316057002505 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 316057002506 putative ligand binding site [chemical binding]; other site 316057002507 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 316057002508 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057002509 catalytic residue [active] 316057002510 LssY C-terminus; Region: LssY_C; pfam14067 316057002511 Staphylococcal nuclease homologues; Region: SNc; smart00318 316057002512 Catalytic site; other site 316057002513 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316057002514 Caspase domain; Region: Peptidase_C14; pfam00656 316057002515 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 316057002516 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 316057002517 active site 316057002518 zinc binding site [ion binding]; other site 316057002519 Predicted transcriptional regulator [Transcription]; Region: COG2932 316057002520 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 316057002521 Catalytic site [active] 316057002522 Protein of unknown function (DUF952); Region: DUF952; pfam06108 316057002523 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 316057002524 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 316057002525 quinone interaction residues [chemical binding]; other site 316057002526 active site 316057002527 catalytic residues [active] 316057002528 FMN binding site [chemical binding]; other site 316057002529 substrate binding site [chemical binding]; other site 316057002530 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 316057002531 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_cladeC; cd03378 316057002532 active site clefts [active] 316057002533 zinc binding site [ion binding]; other site 316057002534 dimer interface [polypeptide binding]; other site 316057002535 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 316057002536 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 316057002537 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 316057002538 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 316057002539 active site 316057002540 DNA binding site [nucleotide binding] 316057002541 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 316057002542 DNA binding site [nucleotide binding] 316057002543 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 316057002544 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057002545 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057002546 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057002547 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057002548 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057002549 putative ligand binding site [chemical binding]; other site 316057002550 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 316057002551 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 316057002552 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 316057002553 ATP binding site [chemical binding]; other site 316057002554 putative Mg++ binding site [ion binding]; other site 316057002555 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 316057002556 nucleotide binding region [chemical binding]; other site 316057002557 ATP-binding site [chemical binding]; other site 316057002558 DEAD/H associated; Region: DEAD_assoc; pfam08494 316057002559 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057002560 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 316057002561 putative active site [active] 316057002562 putative metal binding site [ion binding]; other site 316057002563 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 316057002564 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316057002565 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316057002566 Sel1-like repeats; Region: SEL1; smart00671 316057002567 Sel1-like repeats; Region: SEL1; smart00671 316057002568 Sel1-like repeats; Region: SEL1; smart00671 316057002569 Sel1-like repeats; Region: SEL1; smart00671 316057002570 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057002571 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057002572 SnoaL-like domain; Region: SnoaL_2; pfam12680 316057002573 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 316057002574 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 316057002575 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 316057002576 FAD binding site [chemical binding]; other site 316057002577 substrate binding site [chemical binding]; other site 316057002578 catalytic residues [active] 316057002579 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 316057002580 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 316057002581 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 316057002582 dimer interface [polypeptide binding]; other site 316057002583 active site 316057002584 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 316057002585 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 316057002586 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 316057002587 substrate binding site [chemical binding]; other site 316057002588 oxyanion hole (OAH) forming residues; other site 316057002589 trimer interface [polypeptide binding]; other site 316057002590 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316057002591 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316057002592 glutathionine S-transferase; Provisional; Region: PRK10542 316057002593 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 316057002594 C-terminal domain interface [polypeptide binding]; other site 316057002595 GSH binding site (G-site) [chemical binding]; other site 316057002596 dimer interface [polypeptide binding]; other site 316057002597 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 316057002598 dimer interface [polypeptide binding]; other site 316057002599 N-terminal domain interface [polypeptide binding]; other site 316057002600 substrate binding pocket (H-site) [chemical binding]; other site 316057002601 MarR family; Region: MarR_2; pfam12802 316057002602 glutamate--cysteine ligase; Region: PLN02611 316057002603 PAN domain; Region: PAN_4; pfam14295 316057002604 PAN domain; Region: PAN_4; pfam14295 316057002605 putative binding site; other site 316057002606 protease TldD; Provisional; Region: tldD; PRK10735 316057002607 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 316057002608 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 316057002609 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 316057002610 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316057002611 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 316057002612 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 316057002613 Subunit I/III interface [polypeptide binding]; other site 316057002614 D-pathway; other site 316057002615 Subunit I/VIIc interface [polypeptide binding]; other site 316057002616 Subunit I/IV interface [polypeptide binding]; other site 316057002617 Subunit I/II interface [polypeptide binding]; other site 316057002618 Low-spin heme (heme a) binding site [chemical binding]; other site 316057002619 Subunit I/VIIa interface [polypeptide binding]; other site 316057002620 Subunit I/VIa interface [polypeptide binding]; other site 316057002621 Dimer interface; other site 316057002622 Putative water exit pathway; other site 316057002623 Binuclear center (heme a3/CuB) [ion binding]; other site 316057002624 K-pathway; other site 316057002625 Subunit I/Vb interface [polypeptide binding]; other site 316057002626 Putative proton exit pathway; other site 316057002627 Subunit I/VIb interface; other site 316057002628 Subunit I/VIc interface [polypeptide binding]; other site 316057002629 Electron transfer pathway; other site 316057002630 Subunit I/VIIIb interface [polypeptide binding]; other site 316057002631 Subunit I/VIIb interface [polypeptide binding]; other site 316057002632 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 316057002633 UbiA prenyltransferase family; Region: UbiA; pfam01040 316057002634 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 316057002635 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 316057002636 Subunit III/VIIa interface [polypeptide binding]; other site 316057002637 Phospholipid binding site [chemical binding]; other site 316057002638 Subunit I/III interface [polypeptide binding]; other site 316057002639 Subunit III/VIb interface [polypeptide binding]; other site 316057002640 Subunit III/VIa interface; other site 316057002641 Subunit III/Vb interface [polypeptide binding]; other site 316057002642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 316057002643 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 316057002644 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 316057002645 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 316057002646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057002647 catalytic residue [active] 316057002648 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316057002649 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316057002650 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316057002651 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316057002652 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 316057002653 Transposase domain (DUF772); Region: DUF772; pfam05598 316057002654 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316057002655 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 316057002656 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 316057002657 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 316057002658 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 316057002659 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 316057002660 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 316057002661 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 316057002662 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 316057002663 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 316057002664 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 316057002665 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 316057002666 putative catalytic residue [active] 316057002667 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 316057002668 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 316057002669 putative substrate translocation pore; other site 316057002670 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057002671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057002672 active site 316057002673 phosphorylation site [posttranslational modification] 316057002674 intermolecular recognition site; other site 316057002675 dimerization interface [polypeptide binding]; other site 316057002676 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 316057002677 DNA binding residues [nucleotide binding] 316057002678 dimerization interface [polypeptide binding]; other site 316057002679 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 316057002680 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 316057002681 Na binding site [ion binding]; other site 316057002682 PAS fold; Region: PAS_7; pfam12860 316057002683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057002684 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 316057002685 dimer interface [polypeptide binding]; other site 316057002686 phosphorylation site [posttranslational modification] 316057002687 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 316057002688 ATP binding site [chemical binding]; other site 316057002689 Mg2+ binding site [ion binding]; other site 316057002690 G-X-G motif; other site 316057002691 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057002692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316057002693 active site 316057002694 phosphorylation site [posttranslational modification] 316057002695 intermolecular recognition site; other site 316057002696 dimerization interface [polypeptide binding]; other site 316057002697 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 316057002698 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 316057002699 substrate-cofactor binding pocket; other site 316057002700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057002701 catalytic residue [active] 316057002702 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316057002703 HAMP domain; Region: HAMP; pfam00672 316057002704 dimerization interface [polypeptide binding]; other site 316057002705 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057002706 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057002707 dimer interface [polypeptide binding]; other site 316057002708 putative CheW interface [polypeptide binding]; other site 316057002709 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057002710 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 316057002711 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 316057002712 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 316057002713 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 316057002714 ABC-ATPase subunit interface; other site 316057002715 dimer interface [polypeptide binding]; other site 316057002716 putative PBP binding regions; other site 316057002717 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 316057002718 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 316057002719 intersubunit interface [polypeptide binding]; other site 316057002720 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 316057002721 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 316057002722 P-loop, Walker A motif; other site 316057002723 Base recognition motif; other site 316057002724 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 316057002725 FOG: WD40 repeat [General function prediction only]; Region: COG2319 316057002726 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 316057002727 structural tetrad; other site 316057002728 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 316057002729 MgtC family; Region: MgtC; pfam02308 316057002730 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 316057002731 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 316057002732 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 316057002733 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316057002734 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316057002735 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_6; cd06154 316057002736 homotrimer interaction site [polypeptide binding]; other site 316057002737 putative active site [active] 316057002738 Predicted acetyltransferase [General function prediction only]; Region: COG3153 316057002739 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 316057002740 dimer interface [polypeptide binding]; other site 316057002741 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 316057002742 active site 316057002743 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316057002744 catalytic residues [active] 316057002745 substrate binding site [chemical binding]; other site 316057002746 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 316057002747 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 316057002748 active site 316057002749 Zn binding site [ion binding]; other site 316057002750 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 316057002751 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 316057002752 ferrochelatase; Reviewed; Region: hemH; PRK00035 316057002753 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 316057002754 C-terminal domain interface [polypeptide binding]; other site 316057002755 active site 316057002756 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 316057002757 active site 316057002758 N-terminal domain interface [polypeptide binding]; other site 316057002759 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 316057002760 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 316057002761 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 316057002762 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 316057002763 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 316057002764 putative active site [active] 316057002765 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 316057002766 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 316057002767 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057002768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057002769 metal binding site [ion binding]; metal-binding site 316057002770 active site 316057002771 I-site; other site 316057002772 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316057002773 Beta-lactamase; Region: Beta-lactamase; pfam00144 316057002774 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 316057002775 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 316057002776 active site 316057002777 tetramer interface; other site 316057002778 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 316057002779 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057002780 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316057002781 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 316057002782 putative dimer interface [polypeptide binding]; other site 316057002783 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316057002784 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 316057002785 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 316057002786 active site 316057002787 dimer interface [polypeptide binding]; other site 316057002788 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 316057002789 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 316057002790 active site 316057002791 FMN binding site [chemical binding]; other site 316057002792 substrate binding site [chemical binding]; other site 316057002793 3Fe-4S cluster binding site [ion binding]; other site 316057002794 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 316057002795 domain interface; other site 316057002796 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 316057002797 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316057002798 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057002799 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 316057002800 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 316057002801 non-specific DNA binding site [nucleotide binding]; other site 316057002802 salt bridge; other site 316057002803 sequence-specific DNA binding site [nucleotide binding]; other site 316057002804 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 316057002805 ADP binding site [chemical binding]; other site 316057002806 magnesium binding site [ion binding]; other site 316057002807 putative shikimate binding site; other site 316057002808 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 316057002809 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 316057002810 dimer interface [polypeptide binding]; other site 316057002811 acyl-activating enzyme (AAE) consensus motif; other site 316057002812 putative active site [active] 316057002813 putative AMP binding site [chemical binding]; other site 316057002814 putative CoA binding site [chemical binding]; other site 316057002815 chemical substrate binding site [chemical binding]; other site 316057002816 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057002817 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 316057002818 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 316057002819 substrate binding site [chemical binding]; other site 316057002820 oxyanion hole (OAH) forming residues; other site 316057002821 trimer interface [polypeptide binding]; other site 316057002822 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 316057002823 substrate binding site [chemical binding]; other site 316057002824 trimer interface [polypeptide binding]; other site 316057002825 oxyanion hole (OAH) forming residues; other site 316057002826 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 316057002827 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 316057002828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057002829 NAD(P) binding site [chemical binding]; other site 316057002830 active site 316057002831 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316057002832 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 316057002833 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 316057002834 putative active site [active] 316057002835 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316057002836 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057002837 ligand binding site [chemical binding]; other site 316057002838 Predicted integral membrane protein [Function unknown]; Region: COG0392 316057002839 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316057002840 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 316057002841 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 316057002842 dimer interface [polypeptide binding]; other site 316057002843 phosphorylation site [posttranslational modification] 316057002844 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 316057002845 ATP binding site [chemical binding]; other site 316057002846 Mg2+ binding site [ion binding]; other site 316057002847 G-X-G motif; other site 316057002848 PBP superfamily domain; Region: PBP_like_2; cl17296 316057002849 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 316057002850 dimer interface [polypeptide binding]; other site 316057002851 conserved gate region; other site 316057002852 putative PBP binding loops; other site 316057002853 ABC-ATPase subunit interface; other site 316057002854 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 316057002855 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 316057002856 dimer interface [polypeptide binding]; other site 316057002857 conserved gate region; other site 316057002858 putative PBP binding loops; other site 316057002859 ABC-ATPase subunit interface; other site 316057002860 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 316057002861 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 316057002862 Walker A/P-loop; other site 316057002863 ATP binding site [chemical binding]; other site 316057002864 Q-loop/lid; other site 316057002865 ABC transporter signature motif; other site 316057002866 Walker B; other site 316057002867 D-loop; other site 316057002868 H-loop/switch region; other site 316057002869 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 316057002870 PhoU domain; Region: PhoU; pfam01895 316057002871 PhoU domain; Region: PhoU; pfam01895 316057002872 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 316057002873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057002874 active site 316057002875 phosphorylation site [posttranslational modification] 316057002876 intermolecular recognition site; other site 316057002877 dimerization interface [polypeptide binding]; other site 316057002878 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 316057002879 DNA binding site [nucleotide binding] 316057002880 GcrA cell cycle regulator; Region: GcrA; pfam07750 316057002881 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 316057002882 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 316057002883 inhibitor-cofactor binding pocket; inhibition site 316057002884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057002885 catalytic residue [active] 316057002886 ornithine carbamoyltransferase; Provisional; Region: PRK00779 316057002887 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316057002888 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316057002889 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 316057002890 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 316057002891 dimerization interface [polypeptide binding]; other site 316057002892 domain crossover interface; other site 316057002893 redox-dependent activation switch; other site 316057002894 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 316057002895 OpgC protein; Region: OpgC_C; pfam10129 316057002896 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316057002897 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 316057002898 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 316057002899 active site 316057002900 oxyanion hole [active] 316057002901 catalytic triad [active] 316057002902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057002903 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057002904 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 316057002905 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 316057002906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057002907 catalytic residue [active] 316057002908 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 316057002909 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 316057002910 trimer interface [polypeptide binding]; other site 316057002911 active site 316057002912 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 316057002913 trimer interface [polypeptide binding]; other site 316057002914 active site 316057002915 metallophosphoesterase, RPA4764 family; Region: RPA4764; TIGR03768 316057002916 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 316057002917 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 316057002918 putative efflux protein, MATE family; Region: matE; TIGR00797 316057002919 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316057002920 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 316057002921 DNA binding site [nucleotide binding] 316057002922 active site 316057002923 Fic family protein [Function unknown]; Region: COG3177 316057002924 Fic/DOC family; Region: Fic; pfam02661 316057002925 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316057002926 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316057002927 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316057002928 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 316057002929 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316057002930 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 316057002931 catalytic loop [active] 316057002932 iron binding site [ion binding]; other site 316057002933 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316057002934 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 316057002935 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 316057002936 active site 316057002937 catalytic site [active] 316057002938 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316057002939 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 316057002940 PRC-barrel domain; Region: PRC; pfam05239 316057002941 Predicted membrane protein [Function unknown]; Region: COG3174 316057002942 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 316057002943 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316057002944 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 316057002945 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316057002946 minor groove reading motif; other site 316057002947 helix-hairpin-helix signature motif; other site 316057002948 active site 316057002949 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 316057002950 active site 316057002951 HIGH motif; other site 316057002952 nucleotide binding site [chemical binding]; other site 316057002953 KMSKS motif; other site 316057002954 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 316057002955 dimer interface [polypeptide binding]; other site 316057002956 phosphorylation site [posttranslational modification] 316057002957 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 316057002958 ATP binding site [chemical binding]; other site 316057002959 Mg2+ binding site [ion binding]; other site 316057002960 G-X-G motif; other site 316057002961 Response regulator receiver domain; Region: Response_reg; pfam00072 316057002962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057002963 active site 316057002964 phosphorylation site [posttranslational modification] 316057002965 intermolecular recognition site; other site 316057002966 dimerization interface [polypeptide binding]; other site 316057002967 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 316057002968 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 316057002969 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 316057002970 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 316057002971 Ligand binding site [chemical binding]; other site 316057002972 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316057002973 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 316057002974 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 316057002975 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316057002976 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 316057002977 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316057002978 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316057002979 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 316057002980 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 316057002981 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 316057002982 catalytic residues [active] 316057002983 argininosuccinate lyase; Provisional; Region: PRK00855 316057002984 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 316057002985 active sites [active] 316057002986 tetramer interface [polypeptide binding]; other site 316057002987 diaminopimelate decarboxylase; Region: lysA; TIGR01048 316057002988 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 316057002989 active site 316057002990 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316057002991 substrate binding site [chemical binding]; other site 316057002992 catalytic residues [active] 316057002993 dimer interface [polypeptide binding]; other site 316057002994 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 316057002995 TIGR02302 family protein; Region: aProt_lowcomp 316057002996 Pex19 protein family; Region: Pex19; pfam04614 316057002997 Response regulator receiver domain; Region: Response_reg; pfam00072 316057002998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057002999 active site 316057003000 phosphorylation site [posttranslational modification] 316057003001 intermolecular recognition site; other site 316057003002 dimerization interface [polypeptide binding]; other site 316057003003 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 316057003004 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 316057003005 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 316057003006 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316057003007 Walker A/P-loop; other site 316057003008 ATP binding site [chemical binding]; other site 316057003009 Q-loop/lid; other site 316057003010 ABC transporter signature motif; other site 316057003011 Walker B; other site 316057003012 D-loop; other site 316057003013 H-loop/switch region; other site 316057003014 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 316057003015 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 316057003016 Uncharacterized conserved protein [Function unknown]; Region: COG1434 316057003017 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 316057003018 putative active site [active] 316057003019 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 316057003020 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316057003021 putative acyl-acceptor binding pocket; other site 316057003022 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 316057003023 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 316057003024 putative active site pocket [active] 316057003025 dimerization interface [polypeptide binding]; other site 316057003026 putative catalytic residue [active] 316057003027 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 316057003028 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 316057003029 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057003030 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057003031 Walker A/P-loop; other site 316057003032 ATP binding site [chemical binding]; other site 316057003033 Q-loop/lid; other site 316057003034 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057003035 ABC transporter signature motif; other site 316057003036 Walker B; other site 316057003037 D-loop; other site 316057003038 ABC transporter; Region: ABC_tran_2; pfam12848 316057003039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057003040 agmatinase; Region: agmatinase; TIGR01230 316057003041 Arginase family; Region: Arginase; cd09989 316057003042 active site 316057003043 Mn binding site [ion binding]; other site 316057003044 oligomer interface [polypeptide binding]; other site 316057003045 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316057003046 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 316057003047 homodimer interface [polypeptide binding]; other site 316057003048 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 316057003049 active site pocket [active] 316057003050 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 316057003051 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057003052 active site 316057003053 5'-3' exonuclease; Region: 53EXOc; smart00475 316057003054 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 316057003055 active site 316057003056 metal binding site 1 [ion binding]; metal-binding site 316057003057 putative 5' ssDNA interaction site; other site 316057003058 metal binding site 3; metal-binding site 316057003059 metal binding site 2 [ion binding]; metal-binding site 316057003060 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 316057003061 putative DNA binding site [nucleotide binding]; other site 316057003062 putative metal binding site [ion binding]; other site 316057003063 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 316057003064 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 316057003065 active site 316057003066 catalytic site [active] 316057003067 substrate binding site [chemical binding]; other site 316057003068 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 316057003069 active site 316057003070 DNA binding site [nucleotide binding] 316057003071 catalytic site [active] 316057003072 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 316057003073 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057003074 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 316057003075 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 316057003076 FAD binding pocket [chemical binding]; other site 316057003077 FAD binding motif [chemical binding]; other site 316057003078 phosphate binding motif [ion binding]; other site 316057003079 beta-alpha-beta structure motif; other site 316057003080 NAD binding pocket [chemical binding]; other site 316057003081 Iron coordination center [ion binding]; other site 316057003082 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 316057003083 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316057003084 dimer interface [polypeptide binding]; other site 316057003085 PYR/PP interface [polypeptide binding]; other site 316057003086 TPP binding site [chemical binding]; other site 316057003087 substrate binding site [chemical binding]; other site 316057003088 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316057003089 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 316057003090 4Fe-4S binding domain; Region: Fer4_6; pfam12837 316057003091 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 316057003092 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 316057003093 dimer interface [polypeptide binding]; other site 316057003094 TPP-binding site [chemical binding]; other site 316057003095 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316057003096 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 316057003097 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 316057003098 TOBE domain; Region: TOBE; cl01440 316057003099 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 316057003100 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316057003101 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316057003102 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316057003103 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 316057003104 dimer interface [polypeptide binding]; other site 316057003105 conserved gate region; other site 316057003106 putative PBP binding loops; other site 316057003107 ABC-ATPase subunit interface; other site 316057003108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057003109 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 316057003110 Walker A/P-loop; other site 316057003111 ATP binding site [chemical binding]; other site 316057003112 Q-loop/lid; other site 316057003113 ABC transporter signature motif; other site 316057003114 Walker B; other site 316057003115 D-loop; other site 316057003116 H-loop/switch region; other site 316057003117 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316057003118 Peptidase S8 family domain in Thiazoline oxidase/subtilisin-like proteases; Region: Peptidases_S8_thiazoline_oxidase_subtilisin-like_p; cd07476 316057003119 putative active site [active] 316057003120 putative catalytic triad [active] 316057003121 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 316057003122 Predicted integral membrane protein [Function unknown]; Region: COG5616 316057003123 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 316057003124 TPR motif; other site 316057003125 binding surface 316057003126 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057003127 Cytochrome P450; Region: p450; cl12078 316057003128 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 316057003129 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 316057003130 RNA polymerase sigma factor; Provisional; Region: PRK12537 316057003131 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057003132 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316057003133 DNA binding residues [nucleotide binding] 316057003134 Anti-sigma-K factor rskA; Region: RskA; pfam10099 316057003135 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316057003136 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 316057003137 active site 2 [active] 316057003138 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316057003139 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 316057003140 FMN binding site [chemical binding]; other site 316057003141 substrate binding site [chemical binding]; other site 316057003142 putative catalytic residue [active] 316057003143 Predicted membrane protein [Function unknown]; Region: COG1238 316057003144 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 316057003145 metal binding site [ion binding]; metal-binding site 316057003146 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316057003147 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316057003148 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 316057003149 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 316057003150 active site 316057003151 Fe(II) binding site [ion binding]; other site 316057003152 dimer interface [polypeptide binding]; other site 316057003153 tetramer interface [polypeptide binding]; other site 316057003154 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 316057003155 tetramer interface [polypeptide binding]; other site 316057003156 dimer interface [polypeptide binding]; other site 316057003157 active site 316057003158 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 316057003159 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 316057003160 active site 316057003161 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 316057003162 NAD binding site [chemical binding]; other site 316057003163 hypothetical protein; Provisional; Region: PRK09262 316057003164 Amidohydrolase; Region: Amidohydro_2; pfam04909 316057003165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 316057003166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057003167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057003168 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 316057003169 putative dimerization interface [polypeptide binding]; other site 316057003170 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316057003171 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 316057003172 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 316057003173 active site 316057003174 FMN binding site [chemical binding]; other site 316057003175 substrate binding site [chemical binding]; other site 316057003176 homotetramer interface [polypeptide binding]; other site 316057003177 catalytic residue [active] 316057003178 HAMP domain; Region: HAMP; pfam00672 316057003179 dimerization interface [polypeptide binding]; other site 316057003180 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057003181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057003182 dimer interface [polypeptide binding]; other site 316057003183 putative CheW interface [polypeptide binding]; other site 316057003184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057003185 dimer interface [polypeptide binding]; other site 316057003186 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057003187 putative CheW interface [polypeptide binding]; other site 316057003188 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 316057003189 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 316057003190 Cu(I) binding site [ion binding]; other site 316057003191 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 316057003192 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316057003193 DXD motif; other site 316057003194 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 316057003195 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 316057003196 substrate binding pocket [chemical binding]; other site 316057003197 membrane-bound complex binding site; other site 316057003198 hinge residues; other site 316057003199 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 316057003200 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316057003201 active site 316057003202 nucleotide binding site [chemical binding]; other site 316057003203 HIGH motif; other site 316057003204 KMSKS motif; other site 316057003205 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 316057003206 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 316057003207 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057003208 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 316057003209 dimerization interface [polypeptide binding]; other site 316057003210 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057003211 GAF domain; Region: GAF; pfam01590 316057003212 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316057003213 cyclase homology domain; Region: CHD; cd07302 316057003214 nucleotidyl binding site; other site 316057003215 metal binding site [ion binding]; metal-binding site 316057003216 dimer interface [polypeptide binding]; other site 316057003217 AsmA family; Region: AsmA; pfam05170 316057003218 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316057003219 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057003220 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 316057003221 ligand binding site [chemical binding]; other site 316057003222 flexible hinge region; other site 316057003223 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057003224 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316057003225 Protein export membrane protein; Region: SecD_SecF; cl14618 316057003226 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 316057003227 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 316057003228 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057003229 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316057003230 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057003231 ligand binding site [chemical binding]; other site 316057003232 Caspase domain; Region: Peptidase_C14; pfam00656 316057003233 TPR repeat; Region: TPR_11; pfam13414 316057003234 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 316057003235 binding surface 316057003236 TPR motif; other site 316057003237 TPR repeat; Region: TPR_11; pfam13414 316057003238 Caspase domain; Region: Peptidase_C14; pfam00656 316057003239 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316057003240 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057003241 ligand binding site [chemical binding]; other site 316057003242 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057003243 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057003244 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057003245 MarR family; Region: MarR_2; pfam12802 316057003246 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 316057003247 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057003248 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 316057003249 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057003250 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 316057003251 maleylacetoacetate isomerase; Region: maiA; TIGR01262 316057003252 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 316057003253 C-terminal domain interface [polypeptide binding]; other site 316057003254 GSH binding site (G-site) [chemical binding]; other site 316057003255 putative dimer interface [polypeptide binding]; other site 316057003256 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 316057003257 dimer interface [polypeptide binding]; other site 316057003258 N-terminal domain interface [polypeptide binding]; other site 316057003259 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 316057003260 fumarylacetoacetase; Region: PLN02856 316057003261 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 316057003262 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316057003263 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057003264 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057003265 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316057003266 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316057003267 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316057003268 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316057003269 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316057003270 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316057003271 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316057003272 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316057003273 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 316057003274 dimerization interface [polypeptide binding]; other site 316057003275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057003276 dimer interface [polypeptide binding]; other site 316057003277 putative CheW interface [polypeptide binding]; other site 316057003278 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 316057003279 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 316057003280 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 316057003281 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 316057003282 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 316057003283 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 316057003284 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 316057003285 active site 316057003286 homotetramer interface [polypeptide binding]; other site 316057003287 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 316057003288 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 316057003289 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 316057003290 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 316057003291 CoA binding domain; Region: CoA_binding_2; pfam13380 316057003292 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316057003293 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316057003294 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 316057003295 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 316057003296 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316057003297 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 316057003298 dimer interface [polypeptide binding]; other site 316057003299 conserved gate region; other site 316057003300 putative PBP binding loops; other site 316057003301 ABC-ATPase subunit interface; other site 316057003302 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 316057003303 dimer interface [polypeptide binding]; other site 316057003304 conserved gate region; other site 316057003305 putative PBP binding loops; other site 316057003306 ABC-ATPase subunit interface; other site 316057003307 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 316057003308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057003309 Walker A/P-loop; other site 316057003310 ATP binding site [chemical binding]; other site 316057003311 Q-loop/lid; other site 316057003312 ABC transporter signature motif; other site 316057003313 Walker B; other site 316057003314 D-loop; other site 316057003315 H-loop/switch region; other site 316057003316 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 316057003317 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316057003318 FAD binding domain; Region: FAD_binding_4; pfam01565 316057003319 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 316057003320 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316057003321 nucleotide binding site [chemical binding]; other site 316057003322 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057003323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057003324 short chain dehydrogenase; Provisional; Region: PRK06197 316057003325 NAD(P) binding site [chemical binding]; other site 316057003326 active site 316057003327 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 316057003328 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316057003329 MarR family; Region: MarR_2; pfam12802 316057003330 MarR family; Region: MarR_2; cl17246 316057003331 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057003332 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 316057003333 putative ligand binding site [chemical binding]; other site 316057003334 amidase; Provisional; Region: PRK07235 316057003335 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316057003336 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057003337 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057003338 TM-ABC transporter signature motif; other site 316057003339 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057003340 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 316057003341 ligand binding site [chemical binding]; other site 316057003342 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057003343 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057003344 TM-ABC transporter signature motif; other site 316057003345 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316057003346 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057003347 Walker A/P-loop; other site 316057003348 ATP binding site [chemical binding]; other site 316057003349 Q-loop/lid; other site 316057003350 ABC transporter signature motif; other site 316057003351 Walker B; other site 316057003352 D-loop; other site 316057003353 H-loop/switch region; other site 316057003354 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057003355 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057003356 Walker A/P-loop; other site 316057003357 ATP binding site [chemical binding]; other site 316057003358 Q-loop/lid; other site 316057003359 ABC transporter signature motif; other site 316057003360 Walker B; other site 316057003361 D-loop; other site 316057003362 H-loop/switch region; other site 316057003363 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 316057003364 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 316057003365 putative active site [active] 316057003366 metal binding site [ion binding]; metal-binding site 316057003367 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 316057003368 metal binding site [ion binding]; metal-binding site 316057003369 active site 316057003370 phosphoribulokinase; Provisional; Region: PRK15453 316057003371 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 316057003372 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 316057003373 TPP-binding site [chemical binding]; other site 316057003374 dimer interface [polypeptide binding]; other site 316057003375 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 316057003376 PYR/PP interface [polypeptide binding]; other site 316057003377 dimer interface [polypeptide binding]; other site 316057003378 TPP binding site [chemical binding]; other site 316057003379 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316057003380 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 316057003381 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 316057003382 intersubunit interface [polypeptide binding]; other site 316057003383 active site 316057003384 zinc binding site [ion binding]; other site 316057003385 Na+ binding site [ion binding]; other site 316057003386 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 316057003387 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 316057003388 dimer interface [polypeptide binding]; other site 316057003389 active site 316057003390 catalytic residue [active] 316057003391 metal binding site [ion binding]; metal-binding site 316057003392 FeoA domain; Region: FeoA; cl00838 316057003393 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 316057003394 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 316057003395 G1 box; other site 316057003396 GTP/Mg2+ binding site [chemical binding]; other site 316057003397 Switch I region; other site 316057003398 G2 box; other site 316057003399 G3 box; other site 316057003400 Switch II region; other site 316057003401 G4 box; other site 316057003402 G5 box; other site 316057003403 Nucleoside recognition; Region: Gate; pfam07670 316057003404 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 316057003405 Nucleoside recognition; Region: Gate; pfam07670 316057003406 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 316057003407 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057003408 classical (c) SDRs; Region: SDR_c; cd05233 316057003409 NAD(P) binding site [chemical binding]; other site 316057003410 active site 316057003411 Nif-specific regulatory protein; Region: nifA; TIGR01817 316057003412 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316057003413 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 316057003414 Walker A motif; other site 316057003415 ATP binding site [chemical binding]; other site 316057003416 Walker B motif; other site 316057003417 arginine finger; other site 316057003418 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057003419 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316057003420 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 316057003421 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 316057003422 FeS/SAM binding site; other site 316057003423 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 316057003424 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316057003425 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316057003426 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 316057003427 TPR motif; other site 316057003428 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 316057003429 NifZ domain; Region: NifZ; pfam04319 316057003430 NifZ domain; Region: NifZ; pfam04319 316057003431 NifT/FixU protein; Region: NifT; pfam06988 316057003432 SIR2-like domain; Region: SIR2_2; pfam13289 316057003433 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 316057003434 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 316057003435 Nucleotide-binding sites [chemical binding]; other site 316057003436 Walker A motif; other site 316057003437 Switch I region of nucleotide binding site; other site 316057003438 Fe4S4 binding sites [ion binding]; other site 316057003439 Switch II region of nucleotide binding site; other site 316057003440 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 316057003441 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 316057003442 MoFe protein alpha/beta subunit interactions; other site 316057003443 Alpha subunit P cluster binding residues; other site 316057003444 FeMoco binding residues [chemical binding]; other site 316057003445 MoFe protein alpha subunit/Fe protein contacts; other site 316057003446 MoFe protein dimer/ dimer interactions; other site 316057003447 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 316057003448 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 316057003449 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 316057003450 MoFe protein beta/alpha subunit interactions; other site 316057003451 Beta subunit P cluster binding residues; other site 316057003452 MoFe protein beta subunit/Fe protein contacts; other site 316057003453 MoFe protein dimer/ dimer interactions; other site 316057003454 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 316057003455 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 316057003456 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 316057003457 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 316057003458 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 316057003459 probable nitrogen fixation protein; Region: TIGR02935 316057003460 Rop-like; Region: Rop-like; pfam05082 316057003461 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 316057003462 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 316057003463 NifQ; Region: NifQ; pfam04891 316057003464 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 316057003465 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 316057003466 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 316057003467 trimerization site [polypeptide binding]; other site 316057003468 active site 316057003469 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316057003470 NifU-like domain; Region: NifU; pfam01106 316057003471 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 316057003472 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 316057003473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057003474 catalytic residue [active] 316057003475 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 316057003476 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 316057003477 active site 316057003478 catalytic residues [active] 316057003479 metal binding site [ion binding]; metal-binding site 316057003480 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 316057003481 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 316057003482 Ligand binding site [chemical binding]; other site 316057003483 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316057003484 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 316057003485 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 316057003486 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316057003487 oxidoreductase; Provisional; Region: PRK10015 316057003488 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 316057003489 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316057003490 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 316057003491 acyl carrier protein; Provisional; Region: PRK07081 316057003492 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 316057003493 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057003494 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 316057003495 dimer interface [polypeptide binding]; other site 316057003496 motif 1; other site 316057003497 active site 316057003498 motif 2; other site 316057003499 motif 3; other site 316057003500 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316057003501 classical (c) SDRs; Region: SDR_c; cd05233 316057003502 NAD(P) binding site [chemical binding]; other site 316057003503 active site 316057003504 acyl-CoA synthetase; Provisional; Region: PRK13391 316057003505 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057003506 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057003507 acyl-activating enzyme (AAE) consensus motif; other site 316057003508 acyl-activating enzyme (AAE) consensus motif; other site 316057003509 AMP binding site [chemical binding]; other site 316057003510 active site 316057003511 CoA binding site [chemical binding]; other site 316057003512 Phosphopantetheine attachment site; Region: PP-binding; cl09936 316057003513 thiamine pyrophosphate protein; Validated; Region: PRK08199 316057003514 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316057003515 PYR/PP interface [polypeptide binding]; other site 316057003516 dimer interface [polypeptide binding]; other site 316057003517 TPP binding site [chemical binding]; other site 316057003518 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316057003519 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 316057003520 TPP-binding site [chemical binding]; other site 316057003521 aminotransferase; Provisional; Region: PRK13356 316057003522 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316057003523 homodimer interface [polypeptide binding]; other site 316057003524 substrate-cofactor binding pocket; other site 316057003525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057003526 catalytic residue [active] 316057003527 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 316057003528 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 316057003529 acyl-activating enzyme (AAE) consensus motif; other site 316057003530 putative AMP binding site [chemical binding]; other site 316057003531 putative active site [active] 316057003532 putative CoA binding site [chemical binding]; other site 316057003533 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 316057003534 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 316057003535 homodimer interface [polypeptide binding]; other site 316057003536 substrate-cofactor binding pocket; other site 316057003537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057003538 catalytic residue [active] 316057003539 homoserine O-succinyltransferase; Provisional; Region: PRK05368 316057003540 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 316057003541 conserved cys residue [active] 316057003542 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 316057003543 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316057003544 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316057003545 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 316057003546 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057003547 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 316057003548 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 316057003549 Chain length determinant protein; Region: Wzz; pfam02706 316057003550 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 316057003551 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 316057003552 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 316057003553 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 316057003554 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 316057003555 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 316057003556 NAD binding site [chemical binding]; other site 316057003557 homodimer interface [polypeptide binding]; other site 316057003558 active site 316057003559 substrate binding site [chemical binding]; other site 316057003560 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316057003561 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057003562 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 316057003563 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 316057003564 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 316057003565 putative ligand binding site [chemical binding]; other site 316057003566 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057003567 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 316057003568 TM-ABC transporter signature motif; other site 316057003569 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057003570 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 316057003571 TM-ABC transporter signature motif; other site 316057003572 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 316057003573 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316057003574 Walker A/P-loop; other site 316057003575 ATP binding site [chemical binding]; other site 316057003576 Q-loop/lid; other site 316057003577 ABC transporter signature motif; other site 316057003578 Walker B; other site 316057003579 D-loop; other site 316057003580 H-loop/switch region; other site 316057003581 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316057003582 BA14K-like protein; Region: BA14K; pfam07886 316057003583 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 316057003584 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 316057003585 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316057003586 NAD binding site [chemical binding]; other site 316057003587 homotetramer interface [polypeptide binding]; other site 316057003588 homodimer interface [polypeptide binding]; other site 316057003589 substrate binding site [chemical binding]; other site 316057003590 active site 316057003591 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 316057003592 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 316057003593 dimer interaction site [polypeptide binding]; other site 316057003594 substrate-binding tunnel; other site 316057003595 active site 316057003596 catalytic site [active] 316057003597 substrate binding site [chemical binding]; other site 316057003598 phosphate acetyltransferase; Provisional; Region: PRK11890 316057003599 Acetokinase family; Region: Acetate_kinase; cl17229 316057003600 propionate/acetate kinase; Provisional; Region: PRK12379 316057003601 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 316057003602 CoenzymeA binding site [chemical binding]; other site 316057003603 subunit interaction site [polypeptide binding]; other site 316057003604 PHB binding site; other site 316057003605 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 316057003606 CoenzymeA binding site [chemical binding]; other site 316057003607 subunit interaction site [polypeptide binding]; other site 316057003608 PHB binding site; other site 316057003609 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 316057003610 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316057003611 Catalytic site; other site 316057003612 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316057003613 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 316057003614 substrate binding site [chemical binding]; other site 316057003615 oxyanion hole (OAH) forming residues; other site 316057003616 trimer interface [polypeptide binding]; other site 316057003617 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057003618 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057003619 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057003620 acyl-activating enzyme (AAE) consensus motif; other site 316057003621 acyl-activating enzyme (AAE) consensus motif; other site 316057003622 putative AMP binding site [chemical binding]; other site 316057003623 putative active site [active] 316057003624 putative CoA binding site [chemical binding]; other site 316057003625 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316057003626 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 316057003627 Bacterial transcriptional regulator; Region: IclR; pfam01614 316057003628 enoyl-CoA hydratase; Region: PLN02864 316057003629 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 316057003630 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 316057003631 dimer interaction site [polypeptide binding]; other site 316057003632 substrate-binding tunnel; other site 316057003633 active site 316057003634 catalytic site [active] 316057003635 substrate binding site [chemical binding]; other site 316057003636 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057003637 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 316057003638 ligand binding site [chemical binding]; other site 316057003639 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057003640 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057003641 Walker A/P-loop; other site 316057003642 ATP binding site [chemical binding]; other site 316057003643 Q-loop/lid; other site 316057003644 ABC transporter signature motif; other site 316057003645 Walker B; other site 316057003646 D-loop; other site 316057003647 H-loop/switch region; other site 316057003648 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057003649 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057003650 Walker A/P-loop; other site 316057003651 ATP binding site [chemical binding]; other site 316057003652 Q-loop/lid; other site 316057003653 ABC transporter signature motif; other site 316057003654 Walker B; other site 316057003655 D-loop; other site 316057003656 H-loop/switch region; other site 316057003657 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057003658 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057003659 TM-ABC transporter signature motif; other site 316057003660 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057003661 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057003662 TM-ABC transporter signature motif; other site 316057003663 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 316057003664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057003665 putative ADP-binding pocket [chemical binding]; other site 316057003666 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316057003667 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057003668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057003669 Walker A/P-loop; other site 316057003670 ATP binding site [chemical binding]; other site 316057003671 Q-loop/lid; other site 316057003672 ABC transporter signature motif; other site 316057003673 Walker B; other site 316057003674 D-loop; other site 316057003675 H-loop/switch region; other site 316057003676 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 316057003677 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 316057003678 PRC-barrel domain; Region: PRC; pfam05239 316057003679 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 316057003680 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057003681 putative substrate translocation pore; other site 316057003682 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316057003683 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316057003684 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316057003685 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316057003686 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057003687 Walker A/P-loop; other site 316057003688 ATP binding site [chemical binding]; other site 316057003689 Q-loop/lid; other site 316057003690 ABC transporter signature motif; other site 316057003691 Walker B; other site 316057003692 D-loop; other site 316057003693 H-loop/switch region; other site 316057003694 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057003695 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057003696 Walker A/P-loop; other site 316057003697 ATP binding site [chemical binding]; other site 316057003698 Q-loop/lid; other site 316057003699 ABC transporter signature motif; other site 316057003700 Walker B; other site 316057003701 D-loop; other site 316057003702 H-loop/switch region; other site 316057003703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057003704 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 316057003705 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 316057003706 dimer interface [polypeptide binding]; other site 316057003707 conserved gate region; other site 316057003708 putative PBP binding loops; other site 316057003709 ABC-ATPase subunit interface; other site 316057003710 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316057003711 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 316057003712 dimer interface [polypeptide binding]; other site 316057003713 conserved gate region; other site 316057003714 putative PBP binding loops; other site 316057003715 ABC-ATPase subunit interface; other site 316057003716 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316057003717 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 316057003718 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 316057003719 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 316057003720 CysD dimerization site [polypeptide binding]; other site 316057003721 G1 box; other site 316057003722 putative GEF interaction site [polypeptide binding]; other site 316057003723 GTP/Mg2+ binding site [chemical binding]; other site 316057003724 Switch I region; other site 316057003725 G2 box; other site 316057003726 G3 box; other site 316057003727 Switch II region; other site 316057003728 G4 box; other site 316057003729 G5 box; other site 316057003730 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 316057003731 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 316057003732 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 316057003733 ligand-binding site [chemical binding]; other site 316057003734 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 316057003735 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 316057003736 Active Sites [active] 316057003737 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 316057003738 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 316057003739 Active Sites [active] 316057003740 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 316057003741 substrate binding pocket [chemical binding]; other site 316057003742 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316057003743 membrane-bound complex binding site; other site 316057003744 hinge residues; other site 316057003745 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316057003746 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 316057003747 dimer interface [polypeptide binding]; other site 316057003748 conserved gate region; other site 316057003749 putative PBP binding loops; other site 316057003750 ABC-ATPase subunit interface; other site 316057003751 sulfate transport protein; Provisional; Region: cysT; CHL00187 316057003752 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 316057003753 dimer interface [polypeptide binding]; other site 316057003754 conserved gate region; other site 316057003755 putative PBP binding loops; other site 316057003756 ABC-ATPase subunit interface; other site 316057003757 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 316057003758 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 316057003759 Walker A/P-loop; other site 316057003760 ATP binding site [chemical binding]; other site 316057003761 Q-loop/lid; other site 316057003762 ABC transporter signature motif; other site 316057003763 Walker B; other site 316057003764 D-loop; other site 316057003765 H-loop/switch region; other site 316057003766 TOBE-like domain; Region: TOBE_3; pfam12857 316057003767 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 316057003768 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 316057003769 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 316057003770 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 316057003771 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 316057003772 hydrogenase 1 large subunit; Provisional; Region: PRK10170 316057003773 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 316057003774 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 316057003775 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 316057003776 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 316057003777 putative substrate-binding site; other site 316057003778 nickel binding site [ion binding]; other site 316057003779 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 316057003780 HupF/HypC family; Region: HupF_HypC; pfam01455 316057003781 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 316057003782 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 316057003783 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 316057003784 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 316057003785 Rubredoxin; Region: Rubredoxin; pfam00301 316057003786 iron binding site [ion binding]; other site 316057003787 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 316057003788 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 316057003789 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 316057003790 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 316057003791 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 316057003792 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 316057003793 Acylphosphatase; Region: Acylphosphatase; pfam00708 316057003794 HypF finger; Region: zf-HYPF; pfam07503 316057003795 HypF finger; Region: zf-HYPF; pfam07503 316057003796 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 316057003797 HupF/HypC family; Region: HupF_HypC; pfam01455 316057003798 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 316057003799 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 316057003800 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 316057003801 dimerization interface [polypeptide binding]; other site 316057003802 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 316057003803 ATP binding site [chemical binding]; other site 316057003804 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316057003805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057003806 active site 316057003807 phosphorylation site [posttranslational modification] 316057003808 intermolecular recognition site; other site 316057003809 dimerization interface [polypeptide binding]; other site 316057003810 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 316057003811 Walker A motif; other site 316057003812 ATP binding site [chemical binding]; other site 316057003813 Walker B motif; other site 316057003814 arginine finger; other site 316057003815 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057003816 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316057003817 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 316057003818 putative active site [active] 316057003819 heme pocket [chemical binding]; other site 316057003820 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 316057003821 dimer interface [polypeptide binding]; other site 316057003822 phosphorylation site [posttranslational modification] 316057003823 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 316057003824 ATP binding site [chemical binding]; other site 316057003825 Mg2+ binding site [ion binding]; other site 316057003826 G-X-G motif; other site 316057003827 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057003828 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057003829 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 316057003830 dimerization interface [polypeptide binding]; other site 316057003831 putative DNA binding site [nucleotide binding]; other site 316057003832 putative Zn2+ binding site [ion binding]; other site 316057003833 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 316057003834 active site residue [active] 316057003835 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 316057003836 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 316057003837 S-adenosylmethionine binding site [chemical binding]; other site 316057003838 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 316057003839 putative catalytic residues [active] 316057003840 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316057003841 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 316057003842 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 316057003843 dimerization interface [polypeptide binding]; other site 316057003844 active site 316057003845 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057003846 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057003847 acyl-activating enzyme (AAE) consensus motif; other site 316057003848 AMP binding site [chemical binding]; other site 316057003849 active site 316057003850 CoA binding site [chemical binding]; other site 316057003851 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 316057003852 active site 316057003853 Ap6A binding site [chemical binding]; other site 316057003854 nudix motif; other site 316057003855 metal binding site [ion binding]; metal-binding site 316057003856 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 316057003857 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 316057003858 AAA domain; Region: AAA_23; pfam13476 316057003859 Walker A/P-loop; other site 316057003860 ATP binding site [chemical binding]; other site 316057003861 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 316057003862 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 316057003863 ABC transporter signature motif; other site 316057003864 Walker B; other site 316057003865 D-loop; other site 316057003866 H-loop/switch region; other site 316057003867 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 316057003868 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 316057003869 Thioredoxin; Region: Thioredoxin_4; pfam13462 316057003870 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316057003871 Protein of unknown function (DUF721); Region: DUF721; cl02324 316057003872 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 316057003873 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316057003874 minor groove reading motif; other site 316057003875 helix-hairpin-helix signature motif; other site 316057003876 substrate binding pocket [chemical binding]; other site 316057003877 active site 316057003878 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 316057003879 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 316057003880 DNA binding and oxoG recognition site [nucleotide binding] 316057003881 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 316057003882 DNA methylase; Region: N6_N4_Mtase; pfam01555 316057003883 Predicted metalloprotease [General function prediction only]; Region: COG2321 316057003884 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 316057003885 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 316057003886 MPT binding site; other site 316057003887 trimer interface [polypeptide binding]; other site 316057003888 Coenzyme A transferase; Region: CoA_trans; smart00882 316057003889 Coenzyme A transferase; Region: CoA_trans; smart00882 316057003890 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 316057003891 active site 316057003892 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 316057003893 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 316057003894 FeS/SAM binding site; other site 316057003895 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_10; cd07251 316057003896 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057003897 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 316057003898 RNA/DNA hybrid binding site [nucleotide binding]; other site 316057003899 active site 316057003900 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316057003901 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 316057003902 Fe-S cluster binding site [ion binding]; other site 316057003903 active site 316057003904 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057003905 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 316057003906 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 316057003907 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 316057003908 binding surface 316057003909 TPR motif; other site 316057003910 TPR repeat; Region: TPR_11; pfam13414 316057003911 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 316057003912 binding surface 316057003913 TPR motif; other site 316057003914 TPR repeat; Region: TPR_11; pfam13414 316057003915 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 316057003916 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316057003917 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316057003918 substrate binding pocket [chemical binding]; other site 316057003919 chain length determination region; other site 316057003920 substrate-Mg2+ binding site; other site 316057003921 catalytic residues [active] 316057003922 aspartate-rich region 1; other site 316057003923 active site lid residues [active] 316057003924 aspartate-rich region 2; other site 316057003925 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 316057003926 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 316057003927 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 316057003928 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 316057003929 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 316057003930 tandem repeat interface [polypeptide binding]; other site 316057003931 oligomer interface [polypeptide binding]; other site 316057003932 active site residues [active] 316057003933 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 316057003934 dimer interface [polypeptide binding]; other site 316057003935 motif 1; other site 316057003936 active site 316057003937 motif 2; other site 316057003938 motif 3; other site 316057003939 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316057003940 putative active site [active] 316057003941 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 316057003942 pyruvate phosphate dikinase; Provisional; Region: PRK09279 316057003943 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 316057003944 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316057003945 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316057003946 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 316057003947 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 316057003948 Transposase domain (DUF772); Region: DUF772; pfam05598 316057003949 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316057003950 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 316057003951 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 316057003952 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 316057003953 dimerization interface [polypeptide binding]; other site 316057003954 active site 316057003955 L-aspartate oxidase; Provisional; Region: PRK07512 316057003956 L-aspartate oxidase; Provisional; Region: PRK06175 316057003957 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316057003958 quinolinate synthetase; Provisional; Region: PRK09375 316057003959 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 316057003960 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 316057003961 NADP binding site [chemical binding]; other site 316057003962 dimer interface [polypeptide binding]; other site 316057003963 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 316057003964 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 316057003965 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 316057003966 HD domain; Region: HD_3; cl17350 316057003967 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 316057003968 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 316057003969 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 316057003970 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 316057003971 dihydroorotase; Validated; Region: PRK09060 316057003972 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 316057003973 active site 316057003974 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 316057003975 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 316057003976 nudix motif; other site 316057003977 Uncharacterized conserved protein [Function unknown]; Region: COG2135 316057003978 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316057003979 FAD binding domain; Region: FAD_binding_4; pfam01565 316057003980 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 316057003981 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 316057003982 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057003983 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057003984 active site 316057003985 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 316057003986 aspartate racemase; Region: asp_race; TIGR00035 316057003987 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316057003988 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316057003989 NAD(P) binding site [chemical binding]; other site 316057003990 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 316057003991 CoenzymeA binding site [chemical binding]; other site 316057003992 subunit interaction site [polypeptide binding]; other site 316057003993 PHB binding site; other site 316057003994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057003995 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316057003996 NAD(P) binding site [chemical binding]; other site 316057003997 active site 316057003998 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316057003999 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 316057004000 putative DNA binding site [nucleotide binding]; other site 316057004001 putative Zn2+ binding site [ion binding]; other site 316057004002 AsnC family; Region: AsnC_trans_reg; pfam01037 316057004003 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057004004 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057004005 putative ligand binding site [chemical binding]; other site 316057004006 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057004007 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057004008 acyl-activating enzyme (AAE) consensus motif; other site 316057004009 AMP binding site [chemical binding]; other site 316057004010 active site 316057004011 CoA binding site [chemical binding]; other site 316057004012 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 316057004013 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 316057004014 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057004015 catalytic residue [active] 316057004016 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316057004017 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057004018 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 316057004019 ligand binding site [chemical binding]; other site 316057004020 flexible hinge region; other site 316057004021 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 316057004022 non-specific DNA interactions [nucleotide binding]; other site 316057004023 DNA binding site [nucleotide binding] 316057004024 sequence specific DNA binding site [nucleotide binding]; other site 316057004025 putative cAMP binding site [chemical binding]; other site 316057004026 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 316057004027 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 316057004028 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 316057004029 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 316057004030 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 316057004031 dimerization interface [polypeptide binding]; other site 316057004032 active site 316057004033 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 316057004034 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057004035 FAD binding site [chemical binding]; other site 316057004036 substrate binding pocket [chemical binding]; other site 316057004037 catalytic base [active] 316057004038 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057004039 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 316057004040 putative acyl-CoA synthetase; Provisional; Region: PRK06018 316057004041 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 316057004042 dimer interface [polypeptide binding]; other site 316057004043 acyl-activating enzyme (AAE) consensus motif; other site 316057004044 putative active site [active] 316057004045 AMP binding site [chemical binding]; other site 316057004046 putative CoA binding site [chemical binding]; other site 316057004047 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 316057004048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057004049 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057004050 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 316057004051 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 316057004052 Cl binding site [ion binding]; other site 316057004053 oligomer interface [polypeptide binding]; other site 316057004054 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 316057004055 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 316057004056 nucleoside/Zn binding site; other site 316057004057 dimer interface [polypeptide binding]; other site 316057004058 catalytic motif [active] 316057004059 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 316057004060 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 316057004061 RNA binding surface [nucleotide binding]; other site 316057004062 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 316057004063 active site 316057004064 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 316057004065 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 316057004066 S-adenosylmethionine binding site [chemical binding]; other site 316057004067 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057004068 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 316057004069 DNA binding residues [nucleotide binding] 316057004070 dimerization interface [polypeptide binding]; other site 316057004071 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 316057004072 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 316057004073 active site 316057004074 Zn binding site [ion binding]; other site 316057004075 HemK family putative methylases; Region: hemK_fam; TIGR00536 316057004076 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 316057004077 S-adenosylmethionine binding site [chemical binding]; other site 316057004078 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 316057004079 MoaE homodimer interface [polypeptide binding]; other site 316057004080 MoaD interaction [polypeptide binding]; other site 316057004081 active site residues [active] 316057004082 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 316057004083 MoaE interaction surface [polypeptide binding]; other site 316057004084 MoeB interaction surface [polypeptide binding]; other site 316057004085 thiocarboxylated glycine; other site 316057004086 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 316057004087 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 316057004088 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 316057004089 GIY-YIG motif/motif A; other site 316057004090 active site 316057004091 catalytic site [active] 316057004092 putative DNA binding site [nucleotide binding]; other site 316057004093 metal binding site [ion binding]; metal-binding site 316057004094 UvrB/uvrC motif; Region: UVR; pfam02151 316057004095 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 316057004096 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057004097 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 316057004098 DNA-binding site [nucleotide binding]; DNA binding site 316057004099 RNA-binding motif; other site 316057004100 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 316057004101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004102 Response regulator receiver domain; Region: Response_reg; pfam00072 316057004103 active site 316057004104 phosphorylation site [posttranslational modification] 316057004105 intermolecular recognition site; other site 316057004106 dimerization interface [polypeptide binding]; other site 316057004107 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 316057004108 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 316057004109 active site 316057004110 motif I; other site 316057004111 motif II; other site 316057004112 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 316057004113 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 316057004114 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 316057004115 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 316057004116 inhibitor-cofactor binding pocket; inhibition site 316057004117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057004118 catalytic residue [active] 316057004119 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 316057004120 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 316057004121 dimer interface [polypeptide binding]; other site 316057004122 motif 1; other site 316057004123 motif 2; other site 316057004124 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 316057004125 active site 316057004126 motif 3; other site 316057004127 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 316057004128 anticodon binding site; other site 316057004129 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 316057004130 active site 1 [active] 316057004131 dimer interface [polypeptide binding]; other site 316057004132 hexamer interface [polypeptide binding]; other site 316057004133 active site 2 [active] 316057004134 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; cd03440 316057004135 active site 1 [active] 316057004136 active site 2 [active] 316057004137 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 316057004138 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 316057004139 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 316057004140 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 316057004141 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 316057004142 Protein of unknown function DUF58; Region: DUF58; pfam01882 316057004143 MoxR-like ATPases [General function prediction only]; Region: COG0714 316057004144 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 316057004145 Walker A motif; other site 316057004146 ATP binding site [chemical binding]; other site 316057004147 Walker B motif; other site 316057004148 arginine finger; other site 316057004149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 316057004150 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 316057004151 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 316057004152 putative active site [active] 316057004153 putative CoA binding site [chemical binding]; other site 316057004154 nudix motif; other site 316057004155 metal binding site [ion binding]; metal-binding site 316057004156 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 316057004157 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 316057004158 active site 316057004159 NTP binding site [chemical binding]; other site 316057004160 metal binding triad [ion binding]; metal-binding site 316057004161 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 316057004162 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 316057004163 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 316057004164 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 316057004165 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 316057004166 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 316057004167 [2Fe-2S] cluster binding site [ion binding]; other site 316057004168 cytochrome b; Provisional; Region: CYTB; MTH00191 316057004169 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 316057004170 Qi binding site; other site 316057004171 intrachain domain interface; other site 316057004172 interchain domain interface [polypeptide binding]; other site 316057004173 heme bH binding site [chemical binding]; other site 316057004174 heme bL binding site [chemical binding]; other site 316057004175 Qo binding site; other site 316057004176 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 316057004177 interchain domain interface [polypeptide binding]; other site 316057004178 intrachain domain interface; other site 316057004179 Qi binding site; other site 316057004180 Qo binding site; other site 316057004181 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 316057004182 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316057004183 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316057004184 classical (c) SDRs; Region: SDR_c; cd05233 316057004185 NAD(P) binding site [chemical binding]; other site 316057004186 active site 316057004187 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 316057004188 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 316057004189 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 316057004190 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 316057004191 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 316057004192 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 316057004193 HSP70 interaction site [polypeptide binding]; other site 316057004194 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316057004195 substrate binding site [polypeptide binding]; other site 316057004196 dimer interface [polypeptide binding]; other site 316057004197 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 316057004198 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 316057004199 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 316057004200 DNA binding residues [nucleotide binding] 316057004201 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 316057004202 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316057004203 NAD binding site [chemical binding]; other site 316057004204 homotetramer interface [polypeptide binding]; other site 316057004205 homodimer interface [polypeptide binding]; other site 316057004206 substrate binding site [chemical binding]; other site 316057004207 active site 316057004208 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 316057004209 catalytic core [active] 316057004210 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 316057004211 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 316057004212 Tetramer interface [polypeptide binding]; other site 316057004213 active site 316057004214 FMN-binding site [chemical binding]; other site 316057004215 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 316057004216 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 316057004217 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 316057004218 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 316057004219 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 316057004220 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 316057004221 AAA domain; Region: AAA_14; pfam13173 316057004222 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057004223 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 316057004224 Uncharacterized conserved protein [Function unknown]; Region: COG5476 316057004225 MlrC C-terminus; Region: MlrC_C; pfam07171 316057004226 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 316057004227 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 316057004228 acyl-activating enzyme (AAE) consensus motif; other site 316057004229 putative AMP binding site [chemical binding]; other site 316057004230 putative active site [active] 316057004231 putative CoA binding site [chemical binding]; other site 316057004232 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316057004233 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316057004234 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 316057004235 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057004236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057004237 Walker A/P-loop; other site 316057004238 ATP binding site [chemical binding]; other site 316057004239 Q-loop/lid; other site 316057004240 ABC transporter signature motif; other site 316057004241 Walker B; other site 316057004242 D-loop; other site 316057004243 H-loop/switch region; other site 316057004244 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 316057004245 NADH dehydrogenase subunit B; Validated; Region: PRK06411 316057004246 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 316057004247 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 316057004248 NADH dehydrogenase subunit D; Validated; Region: PRK06075 316057004249 NADH dehydrogenase subunit E; Validated; Region: PRK07539 316057004250 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 316057004251 putative dimer interface [polypeptide binding]; other site 316057004252 [2Fe-2S] cluster binding site [ion binding]; other site 316057004253 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 316057004254 SLBB domain; Region: SLBB; pfam10531 316057004255 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 316057004256 NADH dehydrogenase subunit G; Validated; Region: PRK08166 316057004257 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 316057004258 catalytic loop [active] 316057004259 iron binding site [ion binding]; other site 316057004260 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316057004261 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 316057004262 [4Fe-4S] binding site [ion binding]; other site 316057004263 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 316057004264 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316057004265 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 316057004266 4Fe-4S binding domain; Region: Fer4; pfam00037 316057004267 4Fe-4S binding domain; Region: Fer4; pfam00037 316057004268 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 316057004269 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 316057004270 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057004271 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 316057004272 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057004273 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 316057004274 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 316057004275 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 316057004276 homodimer interface [polypeptide binding]; other site 316057004277 substrate-cofactor binding pocket; other site 316057004278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057004279 catalytic residue [active] 316057004280 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 316057004281 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 316057004282 ligand binding site [chemical binding]; other site 316057004283 flexible hinge region; other site 316057004284 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 316057004285 putative switch regulator; other site 316057004286 non-specific DNA interactions [nucleotide binding]; other site 316057004287 DNA binding site [nucleotide binding] 316057004288 sequence specific DNA binding site [nucleotide binding]; other site 316057004289 putative cAMP binding site [chemical binding]; other site 316057004290 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057004291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004292 active site 316057004293 phosphorylation site [posttranslational modification] 316057004294 intermolecular recognition site; other site 316057004295 dimerization interface [polypeptide binding]; other site 316057004296 response regulator FixJ; Provisional; Region: fixJ; PRK09390 316057004297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004298 active site 316057004299 phosphorylation site [posttranslational modification] 316057004300 intermolecular recognition site; other site 316057004301 dimerization interface [polypeptide binding]; other site 316057004302 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 316057004303 DNA binding residues [nucleotide binding] 316057004304 dimerization interface [polypeptide binding]; other site 316057004305 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 316057004306 PAS fold; Region: PAS_3; pfam08447 316057004307 putative active site [active] 316057004308 heme pocket [chemical binding]; other site 316057004309 PAS domain S-box; Region: sensory_box; TIGR00229 316057004310 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 316057004311 putative active site [active] 316057004312 heme pocket [chemical binding]; other site 316057004313 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 316057004314 dimer interface [polypeptide binding]; other site 316057004315 phosphorylation site [posttranslational modification] 316057004316 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 316057004317 ATP binding site [chemical binding]; other site 316057004318 Mg2+ binding site [ion binding]; other site 316057004319 G-X-G motif; other site 316057004320 FOG: CBS domain [General function prediction only]; Region: COG0517 316057004321 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 316057004322 BON domain; Region: BON; pfam04972 316057004323 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 316057004324 Ligand Binding Site [chemical binding]; other site 316057004325 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 316057004326 Ligand Binding Site [chemical binding]; other site 316057004327 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 316057004328 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 316057004329 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 316057004330 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 316057004331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 316057004332 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 316057004333 substrate binding site [chemical binding]; other site 316057004334 AAA domain; Region: AAA_33; pfam13671 316057004335 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 316057004336 active site 316057004337 FOG: CBS domain [General function prediction only]; Region: COG0517 316057004338 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 316057004339 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 316057004340 CoA binding domain; Region: CoA_binding_2; pfam13380 316057004341 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316057004342 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316057004343 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316057004344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057004345 Coenzyme A binding pocket [chemical binding]; other site 316057004346 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 316057004347 anti sigma factor interaction site; other site 316057004348 regulatory phosphorylation site [posttranslational modification]; other site 316057004349 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 316057004350 Permease; Region: Permease; pfam02405 316057004351 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 316057004352 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 316057004353 Walker A/P-loop; other site 316057004354 ATP binding site [chemical binding]; other site 316057004355 Q-loop/lid; other site 316057004356 ABC transporter signature motif; other site 316057004357 Walker B; other site 316057004358 D-loop; other site 316057004359 H-loop/switch region; other site 316057004360 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316057004361 mce related protein; Region: MCE; pfam02470 316057004362 Protein of unknown function (DUF330); Region: DUF330; cl01135 316057004363 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316057004364 Cytochrome c; Region: Cytochrom_C; pfam00034 316057004365 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 316057004366 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057004367 ligand binding site [chemical binding]; other site 316057004368 flexible hinge region; other site 316057004369 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 316057004370 putative switch regulator; other site 316057004371 non-specific DNA interactions [nucleotide binding]; other site 316057004372 DNA binding site [nucleotide binding] 316057004373 sequence specific DNA binding site [nucleotide binding]; other site 316057004374 putative cAMP binding site [chemical binding]; other site 316057004375 Ion transport protein; Region: Ion_trans; pfam00520 316057004376 Ion channel; Region: Ion_trans_2; pfam07885 316057004377 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057004378 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 316057004379 ligand binding site [chemical binding]; other site 316057004380 flexible hinge region; other site 316057004381 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316057004382 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 316057004383 putative [4Fe-4S] binding site [ion binding]; other site 316057004384 putative molybdopterin cofactor binding site [chemical binding]; other site 316057004385 The MopB_CT_3 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_3; cd02786 316057004386 putative molybdopterin cofactor binding site; other site 316057004387 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 316057004388 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 316057004389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316057004390 HWE histidine kinase; Region: HWE_HK; pfam07536 316057004391 RNA polymerase sigma factor; Provisional; Region: PRK12540 316057004392 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057004393 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 316057004394 DNA binding residues [nucleotide binding] 316057004395 two-component response regulator; Provisional; Region: PRK09191 316057004396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004397 active site 316057004398 phosphorylation site [posttranslational modification] 316057004399 intermolecular recognition site; other site 316057004400 dimerization interface [polypeptide binding]; other site 316057004401 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316057004402 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316057004403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057004404 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057004405 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 316057004406 CsbD-like; Region: CsbD; cl17424 316057004407 malate synthase G; Provisional; Region: PRK02999 316057004408 active site 316057004409 sulfate transport protein; Provisional; Region: cysT; CHL00187 316057004410 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 316057004411 dimer interface [polypeptide binding]; other site 316057004412 conserved gate region; other site 316057004413 putative PBP binding loops; other site 316057004414 ABC-ATPase subunit interface; other site 316057004415 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316057004416 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 316057004417 dimer interface [polypeptide binding]; other site 316057004418 conserved gate region; other site 316057004419 putative PBP binding loops; other site 316057004420 ABC-ATPase subunit interface; other site 316057004421 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316057004422 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316057004423 siroheme synthase; Provisional; Region: cysG; PRK10637 316057004424 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 316057004425 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 316057004426 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 316057004427 active site 316057004428 SAM binding site [chemical binding]; other site 316057004429 homodimer interface [polypeptide binding]; other site 316057004430 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 316057004431 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 316057004432 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316057004433 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316057004434 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 316057004435 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 316057004436 glutaminase; Provisional; Region: PRK00971 316057004437 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 316057004438 glutamine synthetase; Region: PLN02284 316057004439 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316057004440 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316057004441 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 316057004442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057004443 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 316057004444 NAD(P) binding site [chemical binding]; other site 316057004445 active site 316057004446 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 316057004447 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316057004448 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316057004449 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 316057004450 PAS fold; Region: PAS_3; pfam08447 316057004451 putative active site [active] 316057004452 heme pocket [chemical binding]; other site 316057004453 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057004454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057004455 dimer interface [polypeptide binding]; other site 316057004456 putative CheW interface [polypeptide binding]; other site 316057004457 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 316057004458 putative deacylase active site [active] 316057004459 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 316057004460 active site 316057004461 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 316057004462 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 316057004463 binding surface 316057004464 TPR motif; other site 316057004465 TPR repeat; Region: TPR_11; pfam13414 316057004466 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057004467 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 316057004468 catalytic site [active] 316057004469 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 316057004470 pyruvate kinase; Provisional; Region: PRK06247 316057004471 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 316057004472 domain interfaces; other site 316057004473 active site 316057004474 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 316057004475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 316057004476 hypothetical protein; Provisional; Region: PRK13694 316057004477 Peptidase M15; Region: Peptidase_M15_3; cl01194 316057004478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 316057004479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 316057004480 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057004481 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057004482 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057004483 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316057004484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004485 active site 316057004486 phosphorylation site [posttranslational modification] 316057004487 intermolecular recognition site; other site 316057004488 dimerization interface [polypeptide binding]; other site 316057004489 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 316057004490 Walker A motif; other site 316057004491 ATP binding site [chemical binding]; other site 316057004492 Walker B motif; other site 316057004493 arginine finger; other site 316057004494 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057004495 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 316057004496 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 316057004497 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 316057004498 active site 316057004499 Zn binding site [ion binding]; other site 316057004500 putative addiction module antidote; Region: doc_partner; TIGR02609 316057004501 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 316057004502 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 316057004503 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 316057004504 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 316057004505 ligand binding site [chemical binding]; other site 316057004506 homodimer interface [polypeptide binding]; other site 316057004507 NAD(P) binding site [chemical binding]; other site 316057004508 trimer interface B [polypeptide binding]; other site 316057004509 trimer interface A [polypeptide binding]; other site 316057004510 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 316057004511 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 316057004512 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 316057004513 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 316057004514 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 316057004515 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057004516 Cupin domain; Region: Cupin_2; pfam07883 316057004517 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 316057004518 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 316057004519 ATP-grasp domain; Region: ATP-grasp; pfam02222 316057004520 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 316057004521 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057004522 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057004523 metal binding site [ion binding]; metal-binding site 316057004524 active site 316057004525 I-site; other site 316057004526 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 316057004527 Uncharacterized small protein [Function unknown]; Region: COG5570 316057004528 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316057004529 Predicted dehydrogenase [General function prediction only]; Region: COG0579 316057004530 PAS domain; Region: PAS; smart00091 316057004531 PAS fold; Region: PAS_7; pfam12860 316057004532 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316057004533 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 316057004534 putative active site [active] 316057004535 heme pocket [chemical binding]; other site 316057004536 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 316057004537 putative active site [active] 316057004538 heme pocket [chemical binding]; other site 316057004539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057004540 metal binding site [ion binding]; metal-binding site 316057004541 active site 316057004542 I-site; other site 316057004543 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 316057004544 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 316057004545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057004546 Walker A/P-loop; other site 316057004547 ATP binding site [chemical binding]; other site 316057004548 Q-loop/lid; other site 316057004549 ABC transporter signature motif; other site 316057004550 Walker B; other site 316057004551 D-loop; other site 316057004552 H-loop/switch region; other site 316057004553 TOBE domain; Region: TOBE_2; pfam08402 316057004554 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 316057004555 dimer interface [polypeptide binding]; other site 316057004556 conserved gate region; other site 316057004557 putative PBP binding loops; other site 316057004558 ABC-ATPase subunit interface; other site 316057004559 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316057004560 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 316057004561 dimer interface [polypeptide binding]; other site 316057004562 conserved gate region; other site 316057004563 putative PBP binding loops; other site 316057004564 ABC-ATPase subunit interface; other site 316057004565 AsmA family; Region: AsmA; pfam05170 316057004566 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316057004567 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 316057004568 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 316057004569 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 316057004570 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 316057004571 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057004572 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 316057004573 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316057004574 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 316057004575 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316057004576 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 316057004577 ABC-ATPase subunit interface; other site 316057004578 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 316057004579 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 316057004580 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316057004581 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 316057004582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057004583 Beta-Casp domain; Region: Beta-Casp; smart01027 316057004584 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 316057004585 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 316057004586 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 316057004587 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057004588 active site 316057004589 thymidine phosphorylase; Provisional; Region: PRK04350 316057004590 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316057004591 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316057004592 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 316057004593 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057004594 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 316057004595 ligand binding site [chemical binding]; other site 316057004596 flexible hinge region; other site 316057004597 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 316057004598 putative switch regulator; other site 316057004599 non-specific DNA interactions [nucleotide binding]; other site 316057004600 DNA binding site [nucleotide binding] 316057004601 sequence specific DNA binding site [nucleotide binding]; other site 316057004602 putative cAMP binding site [chemical binding]; other site 316057004603 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 316057004604 putative active site [active] 316057004605 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 316057004606 PAS domain; Region: PAS_9; pfam13426 316057004607 PAS domain; Region: PAS_8; pfam13188 316057004608 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316057004609 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316057004610 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 316057004611 putative active site [active] 316057004612 heme pocket [chemical binding]; other site 316057004613 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 316057004614 dimer interface [polypeptide binding]; other site 316057004615 phosphorylation site [posttranslational modification] 316057004616 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 316057004617 ATP binding site [chemical binding]; other site 316057004618 Mg2+ binding site [ion binding]; other site 316057004619 G-X-G motif; other site 316057004620 Phasin protein; Region: Phasin_2; cl11491 316057004621 Phasin protein; Region: Phasin_2; cl11491 316057004622 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 316057004623 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 316057004624 P-loop; other site 316057004625 Magnesium ion binding site [ion binding]; other site 316057004626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057004627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057004628 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 316057004629 putative effector binding pocket; other site 316057004630 dimerization interface [polypeptide binding]; other site 316057004631 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 316057004632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316057004633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057004634 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316057004635 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 316057004636 putative DNA binding site [nucleotide binding]; other site 316057004637 putative Zn2+ binding site [ion binding]; other site 316057004638 AsnC family; Region: AsnC_trans_reg; pfam01037 316057004639 Predicted membrane protein [Function unknown]; Region: COG2259 316057004640 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 316057004641 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 316057004642 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316057004643 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 316057004644 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057004645 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316057004646 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 316057004647 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057004648 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057004649 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 316057004650 IMP binding site; other site 316057004651 dimer interface [polypeptide binding]; other site 316057004652 interdomain contacts; other site 316057004653 partial ornithine binding site; other site 316057004654 methionine sulfoxide reductase A; Provisional; Region: PRK13014 316057004655 methionine sulfoxide reductase B; Provisional; Region: PRK00222 316057004656 SelR domain; Region: SelR; pfam01641 316057004657 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 316057004658 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 316057004659 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 316057004660 active site 316057004661 substrate binding site [chemical binding]; other site 316057004662 metal binding site [ion binding]; metal-binding site 316057004663 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057004664 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057004665 Protein of unknown function (DUF3222); Region: DUF3222; pfam11519 316057004666 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057004667 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 316057004668 catalytic site [active] 316057004669 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057004670 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 316057004671 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057004672 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 316057004673 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316057004674 FtsX-like permease family; Region: FtsX; pfam02687 316057004675 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316057004676 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316057004677 Walker A/P-loop; other site 316057004678 ATP binding site [chemical binding]; other site 316057004679 Q-loop/lid; other site 316057004680 ABC transporter signature motif; other site 316057004681 Walker B; other site 316057004682 D-loop; other site 316057004683 H-loop/switch region; other site 316057004684 eRF1 domain 2; Region: eRF1_2; pfam03464 316057004685 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057004686 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057004687 putative ligand binding site [chemical binding]; other site 316057004688 enoyl-CoA hydratase; Provisional; Region: PRK06144 316057004689 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 316057004690 substrate binding site [chemical binding]; other site 316057004691 oxyanion hole (OAH) forming residues; other site 316057004692 trimer interface [polypeptide binding]; other site 316057004693 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 316057004694 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057004695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057004696 metal binding site [ion binding]; metal-binding site 316057004697 active site 316057004698 I-site; other site 316057004699 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 316057004700 active site 316057004701 Hemerythrin-like domain; Region: Hr-like; cd12108 316057004702 Fe binding site [ion binding]; other site 316057004703 Uncharacterized conserved protein [Function unknown]; Region: COG3350 316057004704 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 316057004705 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057004706 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 316057004707 motif II; other site 316057004708 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 316057004709 putative homodimer interface [polypeptide binding]; other site 316057004710 putative homotetramer interface [polypeptide binding]; other site 316057004711 putative allosteric switch controlling residues; other site 316057004712 putative metal binding site [ion binding]; other site 316057004713 putative homodimer-homodimer interface [polypeptide binding]; other site 316057004714 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 316057004715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057004716 Zn binding site [ion binding]; other site 316057004717 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 316057004718 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 316057004719 FeS/SAM binding site; other site 316057004720 HemN C-terminal domain; Region: HemN_C; pfam06969 316057004721 V4R domain; Region: V4R; cl15268 316057004722 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 316057004723 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 316057004724 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 316057004725 FeS/SAM binding site; other site 316057004726 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057004727 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 316057004728 active site 316057004729 metal binding site [ion binding]; metal-binding site 316057004730 Protein kinase domain; Region: Pkinase; pfam00069 316057004731 Catalytic domain of Protein Kinases; Region: PKc; cd00180 316057004732 active site 316057004733 ATP binding site [chemical binding]; other site 316057004734 substrate binding site [chemical binding]; other site 316057004735 activation loop (A-loop); other site 316057004736 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 316057004737 Ligand Binding Site [chemical binding]; other site 316057004738 BON domain; Region: BON; pfam04972 316057004739 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 316057004740 BON domain; Region: BON; pfam04972 316057004741 BON domain; Region: BON; pfam04972 316057004742 putative phosphoketolase; Provisional; Region: PRK05261 316057004743 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 316057004744 TPP-binding site; other site 316057004745 XFP C-terminal domain; Region: XFP_C; pfam09363 316057004746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316057004747 active site 316057004748 phosphorylation site [posttranslational modification] 316057004749 intermolecular recognition site; other site 316057004750 dimerization interface [polypeptide binding]; other site 316057004751 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 316057004752 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 316057004753 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 316057004754 Response regulator receiver domain; Region: Response_reg; pfam00072 316057004755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004756 active site 316057004757 phosphorylation site [posttranslational modification] 316057004758 intermolecular recognition site; other site 316057004759 dimerization interface [polypeptide binding]; other site 316057004760 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 316057004761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057004762 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 316057004763 dimer interface [polypeptide binding]; other site 316057004764 phosphorylation site [posttranslational modification] 316057004765 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 316057004766 ATP binding site [chemical binding]; other site 316057004767 Mg2+ binding site [ion binding]; other site 316057004768 G-X-G motif; other site 316057004769 Response regulator receiver domain; Region: Response_reg; pfam00072 316057004770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004771 active site 316057004772 phosphorylation site [posttranslational modification] 316057004773 intermolecular recognition site; other site 316057004774 dimerization interface [polypeptide binding]; other site 316057004775 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 316057004776 putative binding surface; other site 316057004777 active site 316057004778 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316057004779 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 316057004780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004781 active site 316057004782 phosphorylation site [posttranslational modification] 316057004783 intermolecular recognition site; other site 316057004784 dimerization interface [polypeptide binding]; other site 316057004785 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 316057004786 DNA binding residues [nucleotide binding] 316057004787 dimerization interface [polypeptide binding]; other site 316057004788 short chain dehydrogenase; Provisional; Region: PRK08339 316057004789 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 316057004790 putative NAD(P) binding site [chemical binding]; other site 316057004791 putative active site [active] 316057004792 short chain dehydrogenase; Provisional; Region: PRK06949 316057004793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057004794 NAD(P) binding site [chemical binding]; other site 316057004795 active site 316057004796 choline dehydrogenase; Validated; Region: PRK02106 316057004797 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316057004798 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 316057004799 NAD(P) binding site [chemical binding]; other site 316057004800 catalytic residues [active] 316057004801 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 316057004802 DNA binding residues [nucleotide binding] 316057004803 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 316057004804 dimer interface [polypeptide binding]; other site 316057004805 putative metal binding site [ion binding]; other site 316057004806 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 316057004807 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 316057004808 metal-binding site [ion binding] 316057004809 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057004810 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316057004811 Predicted thioesterase [General function prediction only]; Region: COG5496 316057004812 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316057004813 The MopB_Phenylacetyl-CoA-OR CD contains the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), and other related proteins. The phenylacetyl-CoA:acceptor oxidoreductase has been characterized as a membrane-bound molybdenum-iron-sulfur...; Region: MopB_Phenylacetyl-CoA-OR; cd02760 316057004814 putative molybdopterin cofactor binding site; other site 316057004815 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316057004816 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 316057004817 putative molybdopterin cofactor binding site; other site 316057004818 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 316057004819 4Fe-4S binding domain; Region: Fer4; pfam00037 316057004820 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 316057004821 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 316057004822 Ferredoxin [Energy production and conversion]; Region: COG1146 316057004823 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 316057004824 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316057004825 dimer interface [polypeptide binding]; other site 316057004826 PYR/PP interface [polypeptide binding]; other site 316057004827 TPP binding site [chemical binding]; other site 316057004828 substrate binding site [chemical binding]; other site 316057004829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 316057004830 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057004831 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057004832 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316057004833 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316057004834 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 316057004835 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 316057004836 TPP-binding site [chemical binding]; other site 316057004837 putative dimer interface [polypeptide binding]; other site 316057004838 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 316057004839 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316057004840 active site 316057004841 AMP binding site [chemical binding]; other site 316057004842 homodimer interface [polypeptide binding]; other site 316057004843 acyl-activating enzyme (AAE) consensus motif; other site 316057004844 CoA binding site [chemical binding]; other site 316057004845 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057004846 TM-ABC transporter signature motif; other site 316057004847 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057004848 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057004849 TM-ABC transporter signature motif; other site 316057004850 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057004851 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057004852 Walker A/P-loop; other site 316057004853 ATP binding site [chemical binding]; other site 316057004854 Q-loop/lid; other site 316057004855 ABC transporter signature motif; other site 316057004856 Walker B; other site 316057004857 D-loop; other site 316057004858 H-loop/switch region; other site 316057004859 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057004860 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057004861 Walker A/P-loop; other site 316057004862 ATP binding site [chemical binding]; other site 316057004863 Q-loop/lid; other site 316057004864 ABC transporter signature motif; other site 316057004865 Walker B; other site 316057004866 D-loop; other site 316057004867 H-loop/switch region; other site 316057004868 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057004869 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 316057004870 putative ligand binding site [chemical binding]; other site 316057004871 PaaX-like protein; Region: PaaX; pfam07848 316057004872 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 316057004873 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 316057004874 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 316057004875 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 316057004876 ligand binding site [chemical binding]; other site 316057004877 flexible hinge region; other site 316057004878 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; cl17320 316057004879 4-hydroxybenzoyl-CoA reductase, beta subunit; Region: 4hydrxCoA_B; TIGR03195 316057004880 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316057004881 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 316057004882 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316057004883 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316057004884 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 316057004885 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316057004886 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316057004887 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 316057004888 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 316057004889 dimer interface [polypeptide binding]; other site 316057004890 acyl-activating enzyme (AAE) consensus motif; other site 316057004891 putative active site [active] 316057004892 putative AMP binding site [chemical binding]; other site 316057004893 putative CoA binding site [chemical binding]; other site 316057004894 chemical substrate binding site [chemical binding]; other site 316057004895 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057004896 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057004897 Coenzyme A binding pocket [chemical binding]; other site 316057004898 putative acetyltransferase; Provisional; Region: PRK03624 316057004899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057004900 Coenzyme A binding pocket [chemical binding]; other site 316057004901 Transcriptional regulator; Region: Rrf2; pfam02082 316057004902 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316057004903 diiron binding motif [ion binding]; other site 316057004904 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 316057004905 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 316057004906 TPP-binding site [chemical binding]; other site 316057004907 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 316057004908 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316057004909 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316057004910 dimer interface [polypeptide binding]; other site 316057004911 PYR/PP interface [polypeptide binding]; other site 316057004912 TPP binding site [chemical binding]; other site 316057004913 substrate binding site [chemical binding]; other site 316057004914 methylamine methyltransferase corrinoid protein reductive activase; Region: Rama_corrin_act; TIGR04270 316057004915 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 316057004916 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 316057004917 dimer interface [polypeptide binding]; other site 316057004918 acyl-activating enzyme (AAE) consensus motif; other site 316057004919 putative active site [active] 316057004920 putative AMP binding site [chemical binding]; other site 316057004921 putative CoA binding site [chemical binding]; other site 316057004922 chemical substrate binding site [chemical binding]; other site 316057004923 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 316057004924 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 316057004925 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 316057004926 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 316057004927 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 316057004928 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 316057004929 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316057004930 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 316057004931 putative NAD(P) binding site [chemical binding]; other site 316057004932 structural Zn binding site [ion binding]; other site 316057004933 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057004934 MarR family; Region: MarR_2; pfam12802 316057004935 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 316057004936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057004937 NAD(P) binding site [chemical binding]; other site 316057004938 active site 316057004939 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 316057004940 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 316057004941 substrate binding site [chemical binding]; other site 316057004942 oxyanion hole (OAH) forming residues; other site 316057004943 trimer interface [polypeptide binding]; other site 316057004944 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 316057004945 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057004946 active site 316057004947 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 316057004948 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 316057004949 acyl-activating enzyme (AAE) consensus motif; other site 316057004950 putative AMP binding site [chemical binding]; other site 316057004951 putative active site [active] 316057004952 putative CoA binding site [chemical binding]; other site 316057004953 enoyl-CoA hydratase; Provisional; Region: PRK05862 316057004954 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 316057004955 substrate binding site [chemical binding]; other site 316057004956 oxyanion hole (OAH) forming residues; other site 316057004957 trimer interface [polypeptide binding]; other site 316057004958 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 316057004959 metal ion-dependent adhesion site (MIDAS); other site 316057004960 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316057004961 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 316057004962 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 316057004963 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 316057004964 multimerization interface [polypeptide binding]; other site 316057004965 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 316057004966 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 316057004967 dimer interface [polypeptide binding]; other site 316057004968 catalytic residue [active] 316057004969 metal binding site [ion binding]; metal-binding site 316057004970 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057004971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057004972 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 316057004973 putative dimerization interface [polypeptide binding]; other site 316057004974 carbon starvation protein A; Provisional; Region: PRK15015 316057004975 Carbon starvation protein CstA; Region: CstA; pfam02554 316057004976 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 316057004977 Protein of unknown function (DUF466); Region: DUF466; pfam04328 316057004978 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057004979 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057004980 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 316057004981 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316057004982 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057004983 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057004984 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057004985 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316057004986 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057004987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057004988 active site 316057004989 phosphorylation site [posttranslational modification] 316057004990 intermolecular recognition site; other site 316057004991 dimerization interface [polypeptide binding]; other site 316057004992 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 316057004993 DNA binding residues [nucleotide binding] 316057004994 dimerization interface [polypeptide binding]; other site 316057004995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 316057004996 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 316057004997 ATP binding site [chemical binding]; other site 316057004998 Mg2+ binding site [ion binding]; other site 316057004999 G-X-G motif; other site 316057005000 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 316057005001 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 316057005002 heme binding site [chemical binding]; other site 316057005003 substrate binding site [chemical binding]; other site 316057005004 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 316057005005 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 316057005006 heme binding site [chemical binding]; other site 316057005007 substrate binding site [chemical binding]; other site 316057005008 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 316057005009 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 316057005010 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057005011 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 316057005012 Walker A/P-loop; other site 316057005013 ATP binding site [chemical binding]; other site 316057005014 Q-loop/lid; other site 316057005015 ABC transporter signature motif; other site 316057005016 Walker B; other site 316057005017 D-loop; other site 316057005018 H-loop/switch region; other site 316057005019 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 316057005020 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 316057005021 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057005022 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057005023 Predicted membrane protein [Function unknown]; Region: COG2246 316057005024 GtrA-like protein; Region: GtrA; pfam04138 316057005025 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057005026 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057005027 Walker A/P-loop; other site 316057005028 ATP binding site [chemical binding]; other site 316057005029 Q-loop/lid; other site 316057005030 ABC transporter signature motif; other site 316057005031 Walker B; other site 316057005032 D-loop; other site 316057005033 H-loop/switch region; other site 316057005034 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057005035 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 316057005036 putative ligand binding site [chemical binding]; other site 316057005037 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057005038 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057005039 TM-ABC transporter signature motif; other site 316057005040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057005041 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057005042 TM-ABC transporter signature motif; other site 316057005043 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 316057005044 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057005045 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 316057005046 acyl-activating enzyme (AAE) consensus motif; other site 316057005047 putative AMP binding site [chemical binding]; other site 316057005048 putative active site [active] 316057005049 putative CoA binding site [chemical binding]; other site 316057005050 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057005051 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057005052 Walker A/P-loop; other site 316057005053 ATP binding site [chemical binding]; other site 316057005054 Q-loop/lid; other site 316057005055 ABC transporter signature motif; other site 316057005056 Walker B; other site 316057005057 D-loop; other site 316057005058 H-loop/switch region; other site 316057005059 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 316057005060 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 316057005061 NAD binding site [chemical binding]; other site 316057005062 substrate binding site [chemical binding]; other site 316057005063 homodimer interface [polypeptide binding]; other site 316057005064 active site 316057005065 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 316057005066 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 316057005067 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 316057005068 NADP binding site [chemical binding]; other site 316057005069 active site 316057005070 putative substrate binding site [chemical binding]; other site 316057005071 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 316057005072 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 316057005073 substrate binding site; other site 316057005074 tetramer interface; other site 316057005075 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057005076 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057005077 Walker A/P-loop; other site 316057005078 ATP binding site [chemical binding]; other site 316057005079 Q-loop/lid; other site 316057005080 ABC transporter signature motif; other site 316057005081 Walker B; other site 316057005082 D-loop; other site 316057005083 H-loop/switch region; other site 316057005084 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057005085 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057005086 Walker A/P-loop; other site 316057005087 ATP binding site [chemical binding]; other site 316057005088 Q-loop/lid; other site 316057005089 ABC transporter signature motif; other site 316057005090 Walker B; other site 316057005091 D-loop; other site 316057005092 H-loop/switch region; other site 316057005093 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057005094 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057005095 TM-ABC transporter signature motif; other site 316057005096 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057005097 TM-ABC transporter signature motif; other site 316057005098 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057005099 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 316057005100 putative ligand binding site [chemical binding]; other site 316057005101 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057005102 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057005103 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057005104 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057005105 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 316057005106 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 316057005107 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 316057005108 putative active site [active] 316057005109 putative substrate binding site [chemical binding]; other site 316057005110 putative cosubstrate binding site; other site 316057005111 catalytic site [active] 316057005112 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 316057005113 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057005114 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 316057005115 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057005116 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057005117 TM-ABC transporter signature motif; other site 316057005118 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057005119 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057005120 TM-ABC transporter signature motif; other site 316057005121 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057005122 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057005123 Walker A/P-loop; other site 316057005124 ATP binding site [chemical binding]; other site 316057005125 Q-loop/lid; other site 316057005126 ABC transporter signature motif; other site 316057005127 Walker B; other site 316057005128 D-loop; other site 316057005129 H-loop/switch region; other site 316057005130 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057005131 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057005132 Walker A/P-loop; other site 316057005133 ATP binding site [chemical binding]; other site 316057005134 Q-loop/lid; other site 316057005135 ABC transporter signature motif; other site 316057005136 Walker B; other site 316057005137 D-loop; other site 316057005138 H-loop/switch region; other site 316057005139 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 316057005140 substrate binding site [chemical binding]; other site 316057005141 THF binding site; other site 316057005142 zinc-binding site [ion binding]; other site 316057005143 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 316057005144 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 316057005145 Ligand binding site; other site 316057005146 Putative Catalytic site; other site 316057005147 DXD motif; other site 316057005148 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 316057005149 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316057005150 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316057005151 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 316057005152 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 316057005153 S-adenosylmethionine synthetase; Validated; Region: PRK05250 316057005154 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 316057005155 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 316057005156 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 316057005157 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 316057005158 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 316057005159 homotetramer interface [polypeptide binding]; other site 316057005160 ligand binding site [chemical binding]; other site 316057005161 catalytic site [active] 316057005162 NAD binding site [chemical binding]; other site 316057005163 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316057005164 helix-hairpin-helix signature motif; other site 316057005165 active site 316057005166 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 316057005167 Ligand Binding Site [chemical binding]; other site 316057005168 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 316057005169 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 316057005170 oligomeric interface; other site 316057005171 putative active site [active] 316057005172 homodimer interface [polypeptide binding]; other site 316057005173 prevent-host-death family protein; Region: phd_fam; TIGR01552 316057005174 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 316057005175 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 316057005176 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316057005177 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316057005178 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057005179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057005180 Walker A/P-loop; other site 316057005181 ATP binding site [chemical binding]; other site 316057005182 Q-loop/lid; other site 316057005183 ABC transporter signature motif; other site 316057005184 Walker B; other site 316057005185 D-loop; other site 316057005186 H-loop/switch region; other site 316057005187 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 316057005188 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 316057005189 NAD binding site [chemical binding]; other site 316057005190 homodimer interface [polypeptide binding]; other site 316057005191 active site 316057005192 substrate binding site [chemical binding]; other site 316057005193 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 316057005194 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316057005195 putative active site [active] 316057005196 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 316057005197 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 316057005198 active site 316057005199 motif I; other site 316057005200 motif II; other site 316057005201 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 316057005202 active site 316057005203 dimer interface [polypeptide binding]; other site 316057005204 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 316057005205 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316057005206 putative active site [active] 316057005207 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 316057005208 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 316057005209 NADP binding site [chemical binding]; other site 316057005210 homopentamer interface [polypeptide binding]; other site 316057005211 substrate binding site [chemical binding]; other site 316057005212 active site 316057005213 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 316057005214 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 316057005215 putative ribose interaction site [chemical binding]; other site 316057005216 putative ADP binding site [chemical binding]; other site 316057005217 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 316057005218 active site 316057005219 nucleotide binding site [chemical binding]; other site 316057005220 HIGH motif; other site 316057005221 KMSKS motif; other site 316057005222 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 316057005223 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 316057005224 NAD(P) binding site [chemical binding]; other site 316057005225 homodimer interface [polypeptide binding]; other site 316057005226 substrate binding site [chemical binding]; other site 316057005227 active site 316057005228 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316057005229 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 316057005230 putative NAD(P) binding site [chemical binding]; other site 316057005231 active site 316057005232 putative substrate binding site [chemical binding]; other site 316057005233 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 316057005234 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 316057005235 Substrate binding site; other site 316057005236 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 316057005237 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316057005238 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316057005239 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316057005240 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 316057005241 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 316057005242 inhibitor-cofactor binding pocket; inhibition site 316057005243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057005244 catalytic residue [active] 316057005245 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 316057005246 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 316057005247 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 316057005248 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 316057005249 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316057005250 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316057005251 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316057005252 Cytochrome C' Region: Cytochrom_C_2; pfam01322 316057005253 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316057005254 Cytochrome c; Region: Cytochrom_C; pfam00034 316057005255 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316057005256 AsnC family; Region: AsnC_trans_reg; pfam01037 316057005257 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 316057005258 dimer interface [polypeptide binding]; other site 316057005259 substrate binding site [chemical binding]; other site 316057005260 ATP binding site [chemical binding]; other site 316057005261 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 316057005262 S-adenosylmethionine binding site [chemical binding]; other site 316057005263 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057005264 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 316057005265 putative active site [active] 316057005266 putative metal binding site [ion binding]; other site 316057005267 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057005268 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 316057005269 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 316057005270 tetramer interface [polypeptide binding]; other site 316057005271 serine racemase; Region: PLN02970 316057005272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057005273 catalytic residue [active] 316057005274 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 316057005275 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 316057005276 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 316057005277 active site 316057005278 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 316057005279 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 316057005280 phosphate binding site [ion binding]; other site 316057005281 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 316057005282 Permease; Region: Permease; pfam02405 316057005283 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 316057005284 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 316057005285 Walker A/P-loop; other site 316057005286 ATP binding site [chemical binding]; other site 316057005287 Q-loop/lid; other site 316057005288 ABC transporter signature motif; other site 316057005289 Walker B; other site 316057005290 D-loop; other site 316057005291 H-loop/switch region; other site 316057005292 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316057005293 mce related protein; Region: MCE; pfam02470 316057005294 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 316057005295 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 316057005296 TPR repeat; Region: TPR_11; pfam13414 316057005297 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 316057005298 TPR motif; other site 316057005299 binding surface 316057005300 TPR repeat; Region: TPR_11; pfam13414 316057005301 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 316057005302 TPR motif; other site 316057005303 binding surface 316057005304 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316057005305 Sulfatase; Region: Sulfatase; pfam00884 316057005306 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316057005307 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 316057005308 catalytic loop [active] 316057005309 iron binding site [ion binding]; other site 316057005310 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 316057005311 active site 316057005312 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 316057005313 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316057005314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057005315 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 316057005316 NAD(P) binding site [chemical binding]; other site 316057005317 active site 316057005318 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 316057005319 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 316057005320 NADP-binding site; other site 316057005321 homotetramer interface [polypeptide binding]; other site 316057005322 substrate binding site [chemical binding]; other site 316057005323 homodimer interface [polypeptide binding]; other site 316057005324 active site 316057005325 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316057005326 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 316057005327 active site 316057005328 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057005329 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 316057005330 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316057005331 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 316057005332 active site 316057005333 nucleophile elbow; other site 316057005334 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 316057005335 oxyanion hole [active] 316057005336 Predicted integral membrane protein [Function unknown]; Region: COG0392 316057005337 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316057005338 dimerization interface [polypeptide binding]; other site 316057005339 metal binding site [ion binding]; metal-binding site 316057005340 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 316057005341 Ligand Binding Site [chemical binding]; other site 316057005342 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 316057005343 catalytic core [active] 316057005344 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316057005345 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316057005346 methionine sulfoxide reductase B; Provisional; Region: PRK00222 316057005347 SelR domain; Region: SelR; pfam01641 316057005348 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316057005349 GAF domain; Region: GAF_3; pfam13492 316057005350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057005351 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 316057005352 dimer interface [polypeptide binding]; other site 316057005353 phosphorylation site [posttranslational modification] 316057005354 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 316057005355 ATP binding site [chemical binding]; other site 316057005356 Mg2+ binding site [ion binding]; other site 316057005357 G-X-G motif; other site 316057005358 Response regulator receiver domain; Region: Response_reg; pfam00072 316057005359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057005360 active site 316057005361 phosphorylation site [posttranslational modification] 316057005362 intermolecular recognition site; other site 316057005363 dimerization interface [polypeptide binding]; other site 316057005364 PAS fold; Region: PAS_4; pfam08448 316057005365 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 316057005366 putative active site [active] 316057005367 heme pocket [chemical binding]; other site 316057005368 PAS fold; Region: PAS_4; pfam08448 316057005369 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 316057005370 dimer interface [polypeptide binding]; other site 316057005371 phosphorylation site [posttranslational modification] 316057005372 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 316057005373 ATP binding site [chemical binding]; other site 316057005374 Mg2+ binding site [ion binding]; other site 316057005375 G-X-G motif; other site 316057005376 Response regulator receiver domain; Region: Response_reg; pfam00072 316057005377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057005378 active site 316057005379 phosphorylation site [posttranslational modification] 316057005380 intermolecular recognition site; other site 316057005381 dimerization interface [polypeptide binding]; other site 316057005382 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 316057005383 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316057005384 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 316057005385 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316057005386 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 316057005387 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316057005388 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 316057005389 flagellin; Reviewed; Region: PRK12688 316057005390 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316057005391 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316057005392 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316057005393 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK12791 316057005394 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 316057005395 chemotactic signal-response protein CheL; Provisional; Region: PRK12790 316057005396 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 316057005397 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 316057005398 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 316057005399 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 316057005400 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316057005401 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 316057005402 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 316057005403 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 316057005404 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 316057005405 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 316057005406 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316057005407 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316057005408 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 316057005409 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316057005410 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 316057005411 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK12785 316057005412 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 316057005413 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 316057005414 Uncharacterized conserved protein [Function unknown]; Region: COG3334 316057005415 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 316057005416 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 316057005417 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 316057005418 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 316057005419 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316057005420 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 316057005421 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 316057005422 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 316057005423 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 316057005424 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 316057005425 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 316057005426 PAS domain; Region: PAS_9; pfam13426 316057005427 putative active site [active] 316057005428 heme pocket [chemical binding]; other site 316057005429 PAS fold; Region: PAS_4; pfam08448 316057005430 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 316057005431 dimer interface [polypeptide binding]; other site 316057005432 phosphorylation site [posttranslational modification] 316057005433 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 316057005434 ATP binding site [chemical binding]; other site 316057005435 Mg2+ binding site [ion binding]; other site 316057005436 G-X-G motif; other site 316057005437 Response regulator receiver domain; Region: Response_reg; pfam00072 316057005438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057005439 active site 316057005440 phosphorylation site [posttranslational modification] 316057005441 intermolecular recognition site; other site 316057005442 dimerization interface [polypeptide binding]; other site 316057005443 Tim44-like domain; Region: Tim44; pfam04280 316057005444 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 316057005445 glutathione s-transferase; Provisional; Region: PTZ00057 316057005446 GSH binding site (G-site) [chemical binding]; other site 316057005447 C-terminal domain interface [polypeptide binding]; other site 316057005448 dimer interface [polypeptide binding]; other site 316057005449 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 316057005450 dimer interface [polypeptide binding]; other site 316057005451 N-terminal domain interface [polypeptide binding]; other site 316057005452 substrate binding pocket (H-site) [chemical binding]; other site 316057005453 Uncharacterized conserved protein [Function unknown]; Region: COG3791 316057005454 fumarate hydratase; Provisional; Region: PRK15389 316057005455 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 316057005456 Fumarase C-terminus; Region: Fumerase_C; pfam05683 316057005457 Protein of unknown function (DUF429); Region: DUF429; pfam04250 316057005458 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 316057005459 Intracellular septation protein A; Region: IspA; cl01098 316057005460 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 316057005461 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316057005462 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 316057005463 non-specific DNA binding site [nucleotide binding]; other site 316057005464 salt bridge; other site 316057005465 sequence-specific DNA binding site [nucleotide binding]; other site 316057005466 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 316057005467 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 316057005468 catalytic residues [active] 316057005469 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316057005470 Caspase domain; Region: Peptidase_C14; pfam00656 316057005471 active site 316057005472 substrate pocket [chemical binding]; other site 316057005473 proteolytic cleavage site; other site 316057005474 dimer interface [polypeptide binding]; other site 316057005475 PilZ domain; Region: PilZ; pfam07238 316057005476 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 316057005477 CoenzymeA binding site [chemical binding]; other site 316057005478 subunit interaction site [polypeptide binding]; other site 316057005479 PHB binding site; other site 316057005480 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057005481 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 316057005482 ligand binding site [chemical binding]; other site 316057005483 flexible hinge region; other site 316057005484 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057005485 non-specific DNA interactions [nucleotide binding]; other site 316057005486 DNA binding site [nucleotide binding] 316057005487 sequence specific DNA binding site [nucleotide binding]; other site 316057005488 putative cAMP binding site [chemical binding]; other site 316057005489 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057005490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057005491 active site 316057005492 phosphorylation site [posttranslational modification] 316057005493 intermolecular recognition site; other site 316057005494 dimerization interface [polypeptide binding]; other site 316057005495 recombinase A; Provisional; Region: recA; PRK09354 316057005496 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 316057005497 hexamer interface [polypeptide binding]; other site 316057005498 Walker A motif; other site 316057005499 ATP binding site [chemical binding]; other site 316057005500 Walker B motif; other site 316057005501 glycine dehydrogenase; Provisional; Region: PRK05367 316057005502 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 316057005503 tetramer interface [polypeptide binding]; other site 316057005504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057005505 catalytic residue [active] 316057005506 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 316057005507 tetramer interface [polypeptide binding]; other site 316057005508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057005509 catalytic residue [active] 316057005510 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 316057005511 lipoyl attachment site [posttranslational modification]; other site 316057005512 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 316057005513 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 316057005514 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 316057005515 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 316057005516 motif 1; other site 316057005517 active site 316057005518 motif 2; other site 316057005519 motif 3; other site 316057005520 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 316057005521 DHHA1 domain; Region: DHHA1; pfam02272 316057005522 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 316057005523 TrkA-N domain; Region: TrkA_N; pfam02254 316057005524 putative cation:proton antiport protein; Provisional; Region: PRK10669 316057005525 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 316057005526 TrkA-N domain; Region: TrkA_N; pfam02254 316057005527 isocitrate dehydrogenase; Validated; Region: PRK08299 316057005528 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 316057005529 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 316057005530 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316057005531 putative active site [active] 316057005532 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 316057005533 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 316057005534 dimerization interface [polypeptide binding]; other site 316057005535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057005536 dimer interface [polypeptide binding]; other site 316057005537 putative CheW interface [polypeptide binding]; other site 316057005538 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316057005539 transcription elongation factor regulatory protein; Validated; Region: PRK06342 316057005540 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316057005541 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057005542 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 316057005543 ligand binding site [chemical binding]; other site 316057005544 flexible hinge region; other site 316057005545 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057005546 non-specific DNA interactions [nucleotide binding]; other site 316057005547 DNA binding site [nucleotide binding] 316057005548 sequence specific DNA binding site [nucleotide binding]; other site 316057005549 putative cAMP binding site [chemical binding]; other site 316057005550 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 316057005551 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 316057005552 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 316057005553 tetramer interface [polypeptide binding]; other site 316057005554 active site 316057005555 Mg2+/Mn2+ binding site [ion binding]; other site 316057005556 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 316057005557 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 316057005558 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 316057005559 ATP binding site [chemical binding]; other site 316057005560 active site 316057005561 substrate binding site [chemical binding]; other site 316057005562 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 316057005563 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 316057005564 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 316057005565 putative active site [active] 316057005566 catalytic triad [active] 316057005567 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 316057005568 CoenzymeA binding site [chemical binding]; other site 316057005569 subunit interaction site [polypeptide binding]; other site 316057005570 PHB binding site; other site 316057005571 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 316057005572 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 316057005573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057005574 catalytic residue [active] 316057005575 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 316057005576 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 316057005577 dimerization interface [polypeptide binding]; other site 316057005578 ATP binding site [chemical binding]; other site 316057005579 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 316057005580 dimerization interface [polypeptide binding]; other site 316057005581 ATP binding site [chemical binding]; other site 316057005582 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316057005583 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 316057005584 Domain of unknown function (DUF427); Region: DUF427; pfam04248 316057005585 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 316057005586 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; pfam06772 316057005587 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 316057005588 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 316057005589 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 316057005590 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 316057005591 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 316057005592 putative GSH binding site [chemical binding]; other site 316057005593 catalytic residues [active] 316057005594 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 316057005595 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316057005596 Beta-lactamase; Region: Beta-lactamase; pfam00144 316057005597 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 316057005598 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 316057005599 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057005600 catalytic residue [active] 316057005601 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 316057005602 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 316057005603 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 316057005604 RNA binding surface [nucleotide binding]; other site 316057005605 Cupin domain; Region: Cupin_2; pfam07883 316057005606 glutamate racemase; Provisional; Region: PRK00865 316057005607 adenylosuccinate lyase; Provisional; Region: PRK07492 316057005608 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 316057005609 tetramer interface [polypeptide binding]; other site 316057005610 active site 316057005611 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 316057005612 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 316057005613 substrate binding site [chemical binding]; other site 316057005614 hexamer interface [polypeptide binding]; other site 316057005615 metal binding site [ion binding]; metal-binding site 316057005616 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 316057005617 EF-hand domain pair; Region: EF_hand_5; pfam13499 316057005618 Ca2+ binding site [ion binding]; other site 316057005619 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 316057005620 putative active site pocket [active] 316057005621 cleavage site 316057005622 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 316057005623 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 316057005624 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316057005625 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 316057005626 dimerization interface [polypeptide binding]; other site 316057005627 ligand binding site [chemical binding]; other site 316057005628 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057005629 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057005630 Walker A/P-loop; other site 316057005631 ATP binding site [chemical binding]; other site 316057005632 Q-loop/lid; other site 316057005633 ABC transporter signature motif; other site 316057005634 Walker B; other site 316057005635 D-loop; other site 316057005636 H-loop/switch region; other site 316057005637 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057005638 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057005639 Walker A/P-loop; other site 316057005640 ATP binding site [chemical binding]; other site 316057005641 Q-loop/lid; other site 316057005642 ABC transporter signature motif; other site 316057005643 Walker B; other site 316057005644 D-loop; other site 316057005645 H-loop/switch region; other site 316057005646 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 316057005647 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 316057005648 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057005649 TM-ABC transporter signature motif; other site 316057005650 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057005651 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057005652 TM-ABC transporter signature motif; other site 316057005653 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 316057005654 putative hydrophobic ligand binding site [chemical binding]; other site 316057005655 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316057005656 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 316057005657 catalytic loop [active] 316057005658 iron binding site [ion binding]; other site 316057005659 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316057005660 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316057005661 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316057005662 MoxR-like ATPases [General function prediction only]; Region: COG0714 316057005663 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 316057005664 Walker A motif; other site 316057005665 ATP binding site [chemical binding]; other site 316057005666 Walker B motif; other site 316057005667 arginine finger; other site 316057005668 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 316057005669 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 316057005670 metal ion-dependent adhesion site (MIDAS); other site 316057005671 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 316057005672 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 316057005673 XdhC Rossmann domain; Region: XdhC_C; pfam13478 316057005674 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 316057005675 putative MPT binding site; other site 316057005676 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 316057005677 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 316057005678 Ligand binding site; other site 316057005679 metal-binding site 316057005680 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 316057005681 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057005682 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057005683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057005684 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057005685 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316057005686 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316057005687 Walker A/P-loop; other site 316057005688 ATP binding site [chemical binding]; other site 316057005689 Q-loop/lid; other site 316057005690 ABC transporter signature motif; other site 316057005691 Walker B; other site 316057005692 D-loop; other site 316057005693 H-loop/switch region; other site 316057005694 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 316057005695 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316057005696 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316057005697 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316057005698 cyclase homology domain; Region: CHD; cd07302 316057005699 nucleotidyl binding site; other site 316057005700 metal binding site [ion binding]; metal-binding site 316057005701 dimer interface [polypeptide binding]; other site 316057005702 Protein of unknown function, DUF488; Region: DUF488; pfam04343 316057005703 Protein of unknown function DUF72; Region: DUF72; pfam01904 316057005704 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 316057005705 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 316057005706 Ligand binding site; other site 316057005707 Putative Catalytic site; other site 316057005708 DXD motif; other site 316057005709 Predicted membrane protein [Function unknown]; Region: COG2246 316057005710 GtrA-like protein; Region: GtrA; pfam04138 316057005711 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316057005712 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 316057005713 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057005714 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 316057005715 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316057005716 substrate binding site [chemical binding]; other site 316057005717 ATP binding site [chemical binding]; other site 316057005718 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316057005719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057005720 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 316057005721 active site 316057005722 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057005723 Cytochrome P450; Region: p450; cl12078 316057005724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057005725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057005726 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057005727 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057005728 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057005729 multidrug efflux protein; Reviewed; Region: PRK09579 316057005730 Protein export membrane protein; Region: SecD_SecF; cl14618 316057005731 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 316057005732 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057005733 Walker A/P-loop; other site 316057005734 ATP binding site [chemical binding]; other site 316057005735 Q-loop/lid; other site 316057005736 ABC transporter signature motif; other site 316057005737 Walker B; other site 316057005738 D-loop; other site 316057005739 H-loop/switch region; other site 316057005740 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057005741 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316057005742 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057005743 Walker A/P-loop; other site 316057005744 ATP binding site [chemical binding]; other site 316057005745 Q-loop/lid; other site 316057005746 ABC transporter signature motif; other site 316057005747 Walker B; other site 316057005748 D-loop; other site 316057005749 H-loop/switch region; other site 316057005750 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057005751 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316057005752 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 316057005753 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 316057005754 dimer interface [polypeptide binding]; other site 316057005755 conserved gate region; other site 316057005756 putative PBP binding loops; other site 316057005757 ABC-ATPase subunit interface; other site 316057005758 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316057005759 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 316057005760 dimer interface [polypeptide binding]; other site 316057005761 conserved gate region; other site 316057005762 putative PBP binding loops; other site 316057005763 ABC-ATPase subunit interface; other site 316057005764 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 316057005765 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 316057005766 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 316057005767 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316057005768 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057005769 PGAP1-like protein; Region: PGAP1; pfam07819 316057005770 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057005771 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057005772 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057005773 Cytochrome P450; Region: p450; pfam00067 316057005774 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 316057005775 Flavodoxin; Region: Flavodoxin_1; pfam00258 316057005776 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 316057005777 FAD binding pocket [chemical binding]; other site 316057005778 FAD binding motif [chemical binding]; other site 316057005779 catalytic residues [active] 316057005780 NAD binding pocket [chemical binding]; other site 316057005781 phosphate binding motif [ion binding]; other site 316057005782 beta-alpha-beta structure motif; other site 316057005783 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 316057005784 Phasin protein; Region: Phasin_2; cl11491 316057005785 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057005786 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057005787 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 316057005788 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 316057005789 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 316057005790 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 316057005791 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 316057005792 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 316057005793 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 316057005794 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 316057005795 FAD binding pocket [chemical binding]; other site 316057005796 FAD binding motif [chemical binding]; other site 316057005797 phosphate binding motif [ion binding]; other site 316057005798 beta-alpha-beta structure motif; other site 316057005799 NAD(p) ribose binding residues [chemical binding]; other site 316057005800 NAD binding pocket [chemical binding]; other site 316057005801 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 316057005802 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 316057005803 catalytic loop [active] 316057005804 iron binding site [ion binding]; other site 316057005805 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057005806 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316057005807 acyl-activating enzyme (AAE) consensus motif; other site 316057005808 AMP binding site [chemical binding]; other site 316057005809 active site 316057005810 CoA binding site [chemical binding]; other site 316057005811 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 316057005812 CoenzymeA binding site [chemical binding]; other site 316057005813 subunit interaction site [polypeptide binding]; other site 316057005814 PHB binding site; other site 316057005815 enoyl-CoA hydratase; Provisional; Region: PRK08140 316057005816 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 316057005817 substrate binding site [chemical binding]; other site 316057005818 oxyanion hole (OAH) forming residues; other site 316057005819 trimer interface [polypeptide binding]; other site 316057005820 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 316057005821 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 316057005822 substrate binding site [chemical binding]; other site 316057005823 dimer interface [polypeptide binding]; other site 316057005824 NADP binding site [chemical binding]; other site 316057005825 catalytic residues [active] 316057005826 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 316057005827 substrate binding site [chemical binding]; other site 316057005828 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 316057005829 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 316057005830 putative di-iron ligands [ion binding]; other site 316057005831 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 316057005832 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057005833 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 316057005834 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057005835 Cytochrome P450; Region: p450; cl12078 316057005836 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 316057005837 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 316057005838 amidase; Provisional; Region: PRK07486 316057005839 Amidase; Region: Amidase; pfam01425 316057005840 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 316057005841 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 316057005842 beta-galactosidase; Region: BGL; TIGR03356 316057005843 tartrate dehydrogenase; Region: TTC; TIGR02089 316057005844 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 316057005845 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316057005846 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 316057005847 NAD binding site [chemical binding]; other site 316057005848 allantoate amidohydrolase; Reviewed; Region: PRK09290 316057005849 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 316057005850 active site 316057005851 metal binding site [ion binding]; metal-binding site 316057005852 dimer interface [polypeptide binding]; other site 316057005853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057005854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057005855 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 316057005856 dimerization interface [polypeptide binding]; other site 316057005857 hypothetical protein; Provisional; Region: PRK05463 316057005858 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316057005859 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_6; cd06340 316057005860 putative ligand binding site [chemical binding]; other site 316057005861 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057005862 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057005863 TM-ABC transporter signature motif; other site 316057005864 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057005865 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057005866 TM-ABC transporter signature motif; other site 316057005867 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057005868 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057005869 Walker A/P-loop; other site 316057005870 ATP binding site [chemical binding]; other site 316057005871 Q-loop/lid; other site 316057005872 ABC transporter signature motif; other site 316057005873 Walker B; other site 316057005874 D-loop; other site 316057005875 H-loop/switch region; other site 316057005876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057005877 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057005878 Walker A/P-loop; other site 316057005879 ATP binding site [chemical binding]; other site 316057005880 Q-loop/lid; other site 316057005881 ABC transporter signature motif; other site 316057005882 Walker B; other site 316057005883 D-loop; other site 316057005884 H-loop/switch region; other site 316057005885 putative aldolase; Validated; Region: PRK08130 316057005886 intersubunit interface [polypeptide binding]; other site 316057005887 active site 316057005888 Zn2+ binding site [ion binding]; other site 316057005889 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316057005890 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316057005891 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 316057005892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 316057005893 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057005894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057005895 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057005896 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057005897 dimer interface [polypeptide binding]; other site 316057005898 putative CheW interface [polypeptide binding]; other site 316057005899 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 316057005900 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057005901 active site 316057005902 Nitronate monooxygenase; Region: NMO; pfam03060 316057005903 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 316057005904 FMN binding site [chemical binding]; other site 316057005905 substrate binding site [chemical binding]; other site 316057005906 putative catalytic residue [active] 316057005907 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 316057005908 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 316057005909 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057005910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057005911 NAD(P) binding site [chemical binding]; other site 316057005912 active site 316057005913 enoyl-CoA hydratase; Provisional; Region: PRK05981 316057005914 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 316057005915 substrate binding site [chemical binding]; other site 316057005916 oxyanion hole (OAH) forming residues; other site 316057005917 trimer interface [polypeptide binding]; other site 316057005918 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 316057005919 Phosphotransferase enzyme family; Region: APH; pfam01636 316057005920 putative active site [active] 316057005921 putative substrate binding site [chemical binding]; other site 316057005922 ATP binding site [chemical binding]; other site 316057005923 enoyl-CoA hydratase; Provisional; Region: PRK06494 316057005924 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 316057005925 substrate binding site [chemical binding]; other site 316057005926 oxyanion hole (OAH) forming residues; other site 316057005927 trimer interface [polypeptide binding]; other site 316057005928 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057005929 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 316057005930 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316057005931 active site 316057005932 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 316057005933 PAS domain; Region: PAS_9; pfam13426 316057005934 putative active site [active] 316057005935 heme pocket [chemical binding]; other site 316057005936 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057005937 Tar ligand binding domain homologue; Region: TarH; pfam02203 316057005938 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 316057005939 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 316057005940 dimerization interface [polypeptide binding]; other site 316057005941 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057005942 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057005943 dimer interface [polypeptide binding]; other site 316057005944 putative CheW interface [polypeptide binding]; other site 316057005945 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057005946 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057005947 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057005948 acyl-activating enzyme (AAE) consensus motif; other site 316057005949 acyl-activating enzyme (AAE) consensus motif; other site 316057005950 putative AMP binding site [chemical binding]; other site 316057005951 putative active site [active] 316057005952 putative CoA binding site [chemical binding]; other site 316057005953 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 316057005954 short chain dehydrogenase; Provisional; Region: PRK07677 316057005955 NAD(P) binding site [chemical binding]; other site 316057005956 substrate binding site [chemical binding]; other site 316057005957 homotetramer interface [polypeptide binding]; other site 316057005958 active site 316057005959 homodimer interface [polypeptide binding]; other site 316057005960 enoyl-CoA hydratase; Provisional; Region: PRK07509 316057005961 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 316057005962 substrate binding site [chemical binding]; other site 316057005963 oxyanion hole (OAH) forming residues; other site 316057005964 trimer interface [polypeptide binding]; other site 316057005965 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 316057005966 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 316057005967 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057005968 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057005969 acyl-activating enzyme (AAE) consensus motif; other site 316057005970 putative AMP binding site [chemical binding]; other site 316057005971 putative active site [active] 316057005972 acyl-activating enzyme (AAE) consensus motif; other site 316057005973 putative CoA binding site [chemical binding]; other site 316057005974 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 316057005975 dimerization interface [polypeptide binding]; other site 316057005976 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316057005977 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 316057005978 dimer interface [polypeptide binding]; other site 316057005979 phosphorylation site [posttranslational modification] 316057005980 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 316057005981 ATP binding site [chemical binding]; other site 316057005982 G-X-G motif; other site 316057005983 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057005984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057005985 active site 316057005986 phosphorylation site [posttranslational modification] 316057005987 intermolecular recognition site; other site 316057005988 dimerization interface [polypeptide binding]; other site 316057005989 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 316057005990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057005991 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 316057005992 putative dimerization interface [polypeptide binding]; other site 316057005993 Predicted membrane protein [Function unknown]; Region: COG2855 316057005994 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 316057005995 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 316057005996 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316057005997 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057005998 ligand binding site [chemical binding]; other site 316057005999 short chain dehydrogenase; Provisional; Region: PRK07791 316057006000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057006001 NAD(P) binding site [chemical binding]; other site 316057006002 active site 316057006003 thiolase; Provisional; Region: PRK06158 316057006004 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057006005 active site 316057006006 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 316057006007 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 316057006008 DUF35 OB-fold domain; Region: DUF35; pfam01796 316057006009 amidase; Provisional; Region: PRK07056 316057006010 Amidase; Region: Amidase; cl11426 316057006011 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 316057006012 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 316057006013 CoenzymeA binding site [chemical binding]; other site 316057006014 subunit interaction site [polypeptide binding]; other site 316057006015 PHB binding site; other site 316057006016 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 316057006017 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316057006018 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057006019 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 316057006020 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316057006021 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 316057006022 substrate binding site [chemical binding]; other site 316057006023 oxyanion hole (OAH) forming residues; other site 316057006024 trimer interface [polypeptide binding]; other site 316057006025 feruloyl-CoA synthase; Reviewed; Region: PRK08180 316057006026 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 316057006027 acyl-activating enzyme (AAE) consensus motif; other site 316057006028 putative AMP binding site [chemical binding]; other site 316057006029 putative active site [active] 316057006030 putative CoA binding site [chemical binding]; other site 316057006031 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 316057006032 active site 316057006033 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316057006034 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 316057006035 putative ligand binding site [chemical binding]; other site 316057006036 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057006037 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057006038 Walker A/P-loop; other site 316057006039 ATP binding site [chemical binding]; other site 316057006040 Q-loop/lid; other site 316057006041 ABC transporter signature motif; other site 316057006042 Walker B; other site 316057006043 D-loop; other site 316057006044 H-loop/switch region; other site 316057006045 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057006046 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057006047 TM-ABC transporter signature motif; other site 316057006048 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057006049 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057006050 Walker A/P-loop; other site 316057006051 ATP binding site [chemical binding]; other site 316057006052 Q-loop/lid; other site 316057006053 ABC transporter signature motif; other site 316057006054 Walker B; other site 316057006055 D-loop; other site 316057006056 H-loop/switch region; other site 316057006057 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057006058 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057006059 TM-ABC transporter signature motif; other site 316057006060 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057006061 MarR family; Region: MarR; pfam01047 316057006062 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 316057006063 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 316057006064 PAS fold; Region: PAS_7; pfam12860 316057006065 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057006066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057006067 metal binding site [ion binding]; metal-binding site 316057006068 active site 316057006069 I-site; other site 316057006070 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 316057006071 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 316057006072 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 316057006073 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 316057006074 TrkA-N domain; Region: TrkA_N; pfam02254 316057006075 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 316057006076 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 316057006077 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 316057006078 MOFRL family; Region: MOFRL; pfam05161 316057006079 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057006080 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057006081 putative ligand binding site [chemical binding]; other site 316057006082 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 316057006083 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 316057006084 Fe-S cluster binding site [ion binding]; other site 316057006085 active site 316057006086 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 316057006087 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 316057006088 FeS/SAM binding site; other site 316057006089 Uncharacterized conserved protein [Function unknown]; Region: COG4544 316057006090 DNA Polymerase Y-family; Region: PolY_like; cd03468 316057006091 active site 316057006092 DNA binding site [nucleotide binding] 316057006093 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 316057006094 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 316057006095 putative active site [active] 316057006096 putative PHP Thumb interface [polypeptide binding]; other site 316057006097 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 316057006098 generic binding surface I; other site 316057006099 generic binding surface II; other site 316057006100 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057006101 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057006102 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316057006103 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316057006104 enoyl-CoA hydratase; Provisional; Region: PRK05862 316057006105 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 316057006106 substrate binding site [chemical binding]; other site 316057006107 oxyanion hole (OAH) forming residues; other site 316057006108 trimer interface [polypeptide binding]; other site 316057006109 RNA polymerase sigma factor; Provisional; Region: PRK12512 316057006110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057006111 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316057006112 DNA binding residues [nucleotide binding] 316057006113 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 316057006114 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316057006115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057006116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057006117 metal binding site [ion binding]; metal-binding site 316057006118 active site 316057006119 I-site; other site 316057006120 RNA polymerase sigma factor; Provisional; Region: PRK12515 316057006121 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057006122 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 316057006123 DNA binding residues [nucleotide binding] 316057006124 TIGR03809 family protein; Region: TIGR03809 316057006125 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 316057006126 dimerization interface [polypeptide binding]; other site 316057006127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057006128 dimer interface [polypeptide binding]; other site 316057006129 putative CheW interface [polypeptide binding]; other site 316057006130 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057006131 dimer interface [polypeptide binding]; other site 316057006132 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057006133 putative CheW interface [polypeptide binding]; other site 316057006134 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 316057006135 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 316057006136 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 316057006137 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 316057006138 putative substrate binding pocket [chemical binding]; other site 316057006139 AC domain interface; other site 316057006140 catalytic triad [active] 316057006141 AB domain interface; other site 316057006142 interchain disulfide; other site 316057006143 membrane ATPase/protein kinase; Provisional; Region: PRK09435 316057006144 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 316057006145 Walker A; other site 316057006146 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 316057006147 putative hydrophobic ligand binding site [chemical binding]; other site 316057006148 protein interface [polypeptide binding]; other site 316057006149 gate; other site 316057006150 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 316057006151 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 316057006152 Protein of unknown function DUF86; Region: DUF86; pfam01934 316057006153 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 316057006154 active site 316057006155 NTP binding site [chemical binding]; other site 316057006156 metal binding triad [ion binding]; metal-binding site 316057006157 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 316057006158 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 316057006159 active site 316057006160 substrate binding site [chemical binding]; other site 316057006161 coenzyme B12 binding site [chemical binding]; other site 316057006162 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 316057006163 B12 binding site [chemical binding]; other site 316057006164 cobalt ligand [ion binding]; other site 316057006165 Uncharacterized conserved protein [Function unknown]; Region: COG3791 316057006166 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 316057006167 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 316057006168 heterodimer interface [polypeptide binding]; other site 316057006169 substrate interaction site [chemical binding]; other site 316057006170 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 316057006171 catalytic center binding site [active] 316057006172 ATP binding site [chemical binding]; other site 316057006173 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 316057006174 homooctamer interface [polypeptide binding]; other site 316057006175 active site 316057006176 dihydropteroate synthase; Region: DHPS; TIGR01496 316057006177 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 316057006178 substrate binding pocket [chemical binding]; other site 316057006179 dimer interface [polypeptide binding]; other site 316057006180 inhibitor binding site; inhibition site 316057006181 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 316057006182 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 316057006183 hypothetical protein; Validated; Region: PRK09104 316057006184 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 316057006185 metal binding site [ion binding]; metal-binding site 316057006186 putative dimer interface [polypeptide binding]; other site 316057006187 aldolase II superfamily protein; Provisional; Region: PRK07044 316057006188 intersubunit interface [polypeptide binding]; other site 316057006189 active site 316057006190 Zn2+ binding site [ion binding]; other site 316057006191 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 316057006192 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 316057006193 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316057006194 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 316057006195 putative active site [active] 316057006196 heme pocket [chemical binding]; other site 316057006197 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 316057006198 dimer interface [polypeptide binding]; other site 316057006199 phosphorylation site [posttranslational modification] 316057006200 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 316057006201 ATP binding site [chemical binding]; other site 316057006202 Mg2+ binding site [ion binding]; other site 316057006203 G-X-G motif; other site 316057006204 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057006205 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 316057006206 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316057006207 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316057006208 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316057006209 NodB motif; other site 316057006210 active site 316057006211 catalytic site [active] 316057006212 metal binding site [ion binding]; metal-binding site 316057006213 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 316057006214 Predicted integral membrane protein [Function unknown]; Region: COG5436 316057006215 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 316057006216 Transglycosylase; Region: Transgly; pfam00912 316057006217 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 316057006218 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316057006219 AAA ATPase domain; Region: AAA_16; pfam13191 316057006220 Walker A motif; other site 316057006221 ATP binding site [chemical binding]; other site 316057006222 Walker B motif; other site 316057006223 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 316057006224 TPR motif; other site 316057006225 binding surface 316057006226 hypothetical protein; Provisional; Region: PRK05170 316057006227 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 316057006228 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 316057006229 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316057006230 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 316057006231 putative substrate translocation pore; other site 316057006232 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316057006233 Flp/Fap pilin component; Region: Flp_Fap; cl01585 316057006234 Uncharacterized conserved protein [Function unknown]; Region: COG5323 316057006235 Terminase-like family; Region: Terminase_6; pfam03237 316057006236 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 316057006237 GIY-YIG motif/motif A; other site 316057006238 putative active site [active] 316057006239 putative metal binding site [ion binding]; other site 316057006240 Phage-related protein [Function unknown]; Region: COG4695 316057006241 Phage portal protein; Region: Phage_portal; pfam04860 316057006242 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 316057006243 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 316057006244 Phage capsid family; Region: Phage_capsid; pfam05065 316057006245 EVE domain; Region: EVE; cl00728 316057006246 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 316057006247 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 316057006248 cofactor binding site; other site 316057006249 DNA binding site [nucleotide binding] 316057006250 substrate interaction site [chemical binding]; other site 316057006251 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 316057006252 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316057006253 Walker A motif; other site 316057006254 ATP binding site [chemical binding]; other site 316057006255 Walker B motif; other site 316057006256 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 316057006257 Terminase-like family; Region: Terminase_6; pfam03237 316057006258 Uncharacterized conserved protein [Function unknown]; Region: COG5323 316057006259 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 316057006260 active site 316057006261 substrate binding sites [chemical binding]; other site 316057006262 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 316057006263 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 316057006264 oligomerization interface [polypeptide binding]; other site 316057006265 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 316057006266 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 316057006267 Phage major tail protein 2; Region: Phage_tail_2; cl11463 316057006268 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 316057006269 phage conserved hypothetical protein; Region: phage_TIGR02216 316057006270 Phage-related minor tail protein [Function unknown]; Region: COG5281 316057006271 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 316057006272 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 316057006273 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 316057006274 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 316057006275 active site 316057006276 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057006277 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 316057006278 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 316057006279 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 316057006280 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 316057006281 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316057006282 NlpC/P60 family; Region: NLPC_P60; cl17555 316057006283 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 316057006284 Putative phage tail protein; Region: Phage-tail_3; pfam13550 316057006285 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 316057006286 Predicted chitinase [General function prediction only]; Region: COG3179 316057006287 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057006288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057006289 active site 316057006290 phosphorylation site [posttranslational modification] 316057006291 intermolecular recognition site; other site 316057006292 dimerization interface [polypeptide binding]; other site 316057006293 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 316057006294 DNA binding site [nucleotide binding] 316057006295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057006296 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 316057006297 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 316057006298 ATP binding site [chemical binding]; other site 316057006299 Mg2+ binding site [ion binding]; other site 316057006300 G-X-G motif; other site 316057006301 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 316057006302 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 316057006303 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 316057006304 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 316057006305 binding surface 316057006306 TPR motif; other site 316057006307 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 316057006308 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 316057006309 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 316057006310 Domain of unknown function (DUF389); Region: DUF389; pfam04087 316057006311 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 316057006312 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 316057006313 active site 316057006314 Zn binding site [ion binding]; other site 316057006315 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316057006316 diiron binding motif [ion binding]; other site 316057006317 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316057006318 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 316057006319 catalytic loop [active] 316057006320 iron binding site [ion binding]; other site 316057006321 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316057006322 diiron binding motif [ion binding]; other site 316057006323 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316057006324 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057006325 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 316057006326 protein binding site [polypeptide binding]; other site 316057006327 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 316057006328 protein binding site [polypeptide binding]; other site 316057006329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057006330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057006331 active site 316057006332 phosphorylation site [posttranslational modification] 316057006333 intermolecular recognition site; other site 316057006334 dimerization interface [polypeptide binding]; other site 316057006335 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 316057006336 DNA binding site [nucleotide binding] 316057006337 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057006338 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 316057006339 dimerization interface [polypeptide binding]; other site 316057006340 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 316057006341 dimer interface [polypeptide binding]; other site 316057006342 phosphorylation site [posttranslational modification] 316057006343 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 316057006344 ATP binding site [chemical binding]; other site 316057006345 Mg2+ binding site [ion binding]; other site 316057006346 G-X-G motif; other site 316057006347 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 316057006348 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316057006349 metal binding triad; other site 316057006350 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316057006351 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316057006352 metal binding triad; other site 316057006353 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316057006354 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 316057006355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316057006356 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 316057006357 catalytic triad [active] 316057006358 putative active site [active] 316057006359 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 316057006360 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057006361 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 316057006362 PAS fold; Region: PAS_3; pfam08447 316057006363 putative active site [active] 316057006364 heme pocket [chemical binding]; other site 316057006365 PAS fold; Region: PAS_7; pfam12860 316057006366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057006367 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 316057006368 dimer interface [polypeptide binding]; other site 316057006369 phosphorylation site [posttranslational modification] 316057006370 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 316057006371 ATP binding site [chemical binding]; other site 316057006372 Mg2+ binding site [ion binding]; other site 316057006373 G-X-G motif; other site 316057006374 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 316057006375 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 316057006376 Cation efflux family; Region: Cation_efflux; cl00316 316057006377 Cation efflux family; Region: Cation_efflux; cl00316 316057006378 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 316057006379 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316057006380 NAD(P) binding site [chemical binding]; other site 316057006381 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316057006382 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 316057006383 FMN binding site [chemical binding]; other site 316057006384 substrate binding site [chemical binding]; other site 316057006385 putative catalytic residue [active] 316057006386 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 316057006387 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 316057006388 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316057006389 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316057006390 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316057006391 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316057006392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 316057006393 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 316057006394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 316057006395 formyl-coenzyme A transferase; Provisional; Region: PRK05398 316057006396 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057006397 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316057006398 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316057006399 DNA-binding site [nucleotide binding]; DNA binding site 316057006400 FCD domain; Region: FCD; pfam07729 316057006401 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 316057006402 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 316057006403 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 316057006404 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 316057006405 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 316057006406 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 316057006407 FeS/SAM binding site; other site 316057006408 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316057006409 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 316057006410 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 316057006411 substrate binding site [chemical binding]; other site 316057006412 catalytic Zn binding site [ion binding]; other site 316057006413 NAD binding site [chemical binding]; other site 316057006414 structural Zn binding site [ion binding]; other site 316057006415 dimer interface [polypeptide binding]; other site 316057006416 HerA helicase [Replication, recombination, and repair]; Region: COG0433 316057006417 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057006418 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057006419 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057006420 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057006421 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057006422 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057006423 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057006424 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316057006425 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 316057006426 active site 316057006427 nucleophile elbow; other site 316057006428 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 316057006429 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 316057006430 FMN binding site [chemical binding]; other site 316057006431 active site 316057006432 catalytic residues [active] 316057006433 substrate binding site [chemical binding]; other site 316057006434 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 316057006435 catalytic motif [active] 316057006436 Catalytic residue [active] 316057006437 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 316057006438 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 316057006439 dimer interface [polypeptide binding]; other site 316057006440 phosphorylation site [posttranslational modification] 316057006441 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 316057006442 ATP binding site [chemical binding]; other site 316057006443 Mg2+ binding site [ion binding]; other site 316057006444 G-X-G motif; other site 316057006445 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316057006446 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316057006447 Domain of unknown function DUF59; Region: DUF59; pfam01883 316057006448 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 316057006449 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 316057006450 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316057006451 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 316057006452 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 316057006453 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 316057006454 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 316057006455 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 316057006456 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 316057006457 FeS/SAM binding site; other site 316057006458 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 316057006459 phosphoglycolate phosphatase; Provisional; Region: PRK13222 316057006460 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 316057006461 motif II; other site 316057006462 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 316057006463 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316057006464 active site 316057006465 dimer interface [polypeptide binding]; other site 316057006466 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 316057006467 glutathione reductase; Validated; Region: PRK06116 316057006468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316057006469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057006470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316057006471 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316057006472 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 316057006473 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 316057006474 NAD synthetase; Provisional; Region: PRK13981 316057006475 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 316057006476 multimer interface [polypeptide binding]; other site 316057006477 active site 316057006478 catalytic triad [active] 316057006479 protein interface 1 [polypeptide binding]; other site 316057006480 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 316057006481 homodimer interface [polypeptide binding]; other site 316057006482 NAD binding pocket [chemical binding]; other site 316057006483 ATP binding pocket [chemical binding]; other site 316057006484 Mg binding site [ion binding]; other site 316057006485 active-site loop [active] 316057006486 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 316057006487 oligomeric interface; other site 316057006488 putative active site [active] 316057006489 homodimer interface [polypeptide binding]; other site 316057006490 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 316057006491 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 316057006492 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 316057006493 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316057006494 active site 316057006495 HIGH motif; other site 316057006496 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316057006497 KMSKS motif; other site 316057006498 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 316057006499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316057006500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057006501 Coenzyme A binding pocket [chemical binding]; other site 316057006502 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 316057006503 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 316057006504 active site 316057006505 catalytic residues [active] 316057006506 metal binding site [ion binding]; metal-binding site 316057006507 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 316057006508 hypothetical protein; Provisional; Region: PRK12474 316057006509 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316057006510 PYR/PP interface [polypeptide binding]; other site 316057006511 dimer interface [polypeptide binding]; other site 316057006512 TPP binding site [chemical binding]; other site 316057006513 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 316057006514 TPP-binding site [chemical binding]; other site 316057006515 dimer interface [polypeptide binding]; other site 316057006516 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316057006517 FAD binding domain; Region: FAD_binding_4; pfam01565 316057006518 Cytochrome c; Region: Cytochrom_C; pfam00034 316057006519 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316057006520 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316057006521 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316057006522 Cytochrome c [Energy production and conversion]; Region: COG3258 316057006523 Cytochrome c; Region: Cytochrom_C; pfam00034 316057006524 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 316057006525 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057006526 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 316057006527 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 316057006528 Walker A/P-loop; other site 316057006529 ATP binding site [chemical binding]; other site 316057006530 Q-loop/lid; other site 316057006531 ABC transporter signature motif; other site 316057006532 Walker B; other site 316057006533 D-loop; other site 316057006534 H-loop/switch region; other site 316057006535 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 316057006536 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 316057006537 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 316057006538 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 316057006539 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 316057006540 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316057006541 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 316057006542 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 316057006543 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 316057006544 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057006545 ligand binding site [chemical binding]; other site 316057006546 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 316057006547 active site residue [active] 316057006548 hypothetical protein; Provisional; Region: PRK08912 316057006549 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 316057006550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057006551 homodimer interface [polypeptide binding]; other site 316057006552 catalytic residue [active] 316057006553 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 316057006554 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316057006555 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 316057006556 B12 binding site [chemical binding]; other site 316057006557 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 316057006558 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 316057006559 FeS/SAM binding site; other site 316057006560 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 316057006561 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 316057006562 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316057006563 putative acyl-acceptor binding pocket; other site 316057006564 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316057006565 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 316057006566 putative NAD(P) binding site [chemical binding]; other site 316057006567 structural Zn binding site [ion binding]; other site 316057006568 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 316057006569 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 316057006570 dimer interface [polypeptide binding]; other site 316057006571 active site 316057006572 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 316057006573 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 316057006574 active site 316057006575 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 316057006576 acyl carrier protein; Provisional; Region: PRK06508 316057006577 MgtC family; Region: MgtC; pfam02308 316057006578 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 316057006579 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 316057006580 HerA helicase [Replication, recombination, and repair]; Region: COG0433 316057006581 Domain of unknown function DUF87; Region: DUF87; pfam01935 316057006582 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 316057006583 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 316057006584 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 316057006585 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 316057006586 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 316057006587 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316057006588 PYR/PP interface [polypeptide binding]; other site 316057006589 dimer interface [polypeptide binding]; other site 316057006590 TPP binding site [chemical binding]; other site 316057006591 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316057006592 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 316057006593 TPP-binding site [chemical binding]; other site 316057006594 dimer interface [polypeptide binding]; other site 316057006595 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 316057006596 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 316057006597 tetramer interface [polypeptide binding]; other site 316057006598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057006599 catalytic residue [active] 316057006600 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 316057006601 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 316057006602 putative valine binding site [chemical binding]; other site 316057006603 dimer interface [polypeptide binding]; other site 316057006604 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 316057006605 Protein required for attachment to host cells; Region: Host_attach; pfam10116 316057006606 ketol-acid reductoisomerase; Provisional; Region: PRK05479 316057006607 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 316057006608 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 316057006609 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 316057006610 short chain dehydrogenase; Provisional; Region: PRK06914 316057006611 NADP binding site [chemical binding]; other site 316057006612 active site 316057006613 steroid binding site; other site 316057006614 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 316057006615 dimer interface [polypeptide binding]; other site 316057006616 conserved gate region; other site 316057006617 ABC-ATPase subunit interface; other site 316057006618 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 316057006619 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316057006620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057006621 Walker A/P-loop; other site 316057006622 ATP binding site [chemical binding]; other site 316057006623 Q-loop/lid; other site 316057006624 ABC transporter signature motif; other site 316057006625 Walker B; other site 316057006626 D-loop; other site 316057006627 H-loop/switch region; other site 316057006628 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316057006629 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316057006630 Walker A/P-loop; other site 316057006631 ATP binding site [chemical binding]; other site 316057006632 Q-loop/lid; other site 316057006633 ABC transporter signature motif; other site 316057006634 Walker B; other site 316057006635 D-loop; other site 316057006636 H-loop/switch region; other site 316057006637 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316057006638 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 316057006639 dimer interface [polypeptide binding]; other site 316057006640 conserved gate region; other site 316057006641 ABC-ATPase subunit interface; other site 316057006642 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316057006643 NMT1-like family; Region: NMT1_2; pfam13379 316057006644 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 316057006645 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 316057006646 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 316057006647 biotin synthase; Region: bioB; TIGR00433 316057006648 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 316057006649 FeS/SAM binding site; other site 316057006650 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 316057006651 2-isopropylmalate synthase; Validated; Region: PRK00915 316057006652 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 316057006653 active site 316057006654 catalytic residues [active] 316057006655 metal binding site [ion binding]; metal-binding site 316057006656 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 316057006657 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316057006658 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 316057006659 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 316057006660 DctM-like transporters; Region: DctM; pfam06808 316057006661 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 316057006662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057006663 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 316057006664 Walker A motif; other site 316057006665 ATP binding site [chemical binding]; other site 316057006666 Nuclease-related domain; Region: NERD; pfam08378 316057006667 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 316057006668 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 316057006669 active site 316057006670 ATP binding site [chemical binding]; other site 316057006671 substrate binding site [chemical binding]; other site 316057006672 activation loop (A-loop); other site 316057006673 AAA domain; Region: AAA_11; pfam13086 316057006674 AAA domain; Region: AAA_30; pfam13604 316057006675 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 316057006676 AAA domain; Region: AAA_12; pfam13087 316057006677 MULE transposase domain; Region: MULE; pfam10551 316057006678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057006679 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 316057006680 ATP binding site [chemical binding]; other site 316057006681 Mg2+ binding site [ion binding]; other site 316057006682 G-X-G motif; other site 316057006683 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 316057006684 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 316057006685 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 316057006686 putative active site [active] 316057006687 putative metal binding site [ion binding]; other site 316057006688 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 316057006689 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316057006690 MarR family; Region: MarR_2; pfam12802 316057006691 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316057006692 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316057006693 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 316057006694 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057006695 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 316057006696 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 316057006697 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316057006698 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 316057006699 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057006700 MarR family; Region: MarR_2; pfam12802 316057006701 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316057006702 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057006703 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 316057006704 OpgC protein; Region: OpgC_C; pfam10129 316057006705 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316057006706 TIGR02594 family protein; Region: TIGR02594 316057006707 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 316057006708 putative active site [active] 316057006709 putative metal binding site [ion binding]; other site 316057006710 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 316057006711 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 316057006712 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 316057006713 active site 316057006714 DNA binding site [nucleotide binding] 316057006715 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 316057006716 DNA binding site [nucleotide binding] 316057006717 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 316057006718 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 316057006719 DNA binding site [nucleotide binding] 316057006720 active site 316057006721 Int/Topo IB signature motif; other site 316057006722 Autoinducer binding domain; Region: Autoind_bind; pfam03472 316057006723 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 316057006724 DNA binding residues [nucleotide binding] 316057006725 Autoinducer synthetase; Region: Autoind_synth; cl17404 316057006726 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 316057006727 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 316057006728 active site 316057006729 DNA binding site [nucleotide binding] 316057006730 Int/Topo IB signature motif; other site 316057006731 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 316057006732 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316057006733 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316057006734 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 316057006735 dimer interface [polypeptide binding]; other site 316057006736 conserved gate region; other site 316057006737 putative PBP binding loops; other site 316057006738 ABC-ATPase subunit interface; other site 316057006739 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316057006740 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316057006741 Walker A/P-loop; other site 316057006742 ATP binding site [chemical binding]; other site 316057006743 Q-loop/lid; other site 316057006744 ABC transporter signature motif; other site 316057006745 Walker B; other site 316057006746 D-loop; other site 316057006747 H-loop/switch region; other site 316057006748 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 316057006749 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 316057006750 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 316057006751 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 316057006752 urea carboxylase; Region: urea_carbox; TIGR02712 316057006753 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057006754 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057006755 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 316057006756 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 316057006757 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 316057006758 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 316057006759 carboxyltransferase (CT) interaction site; other site 316057006760 biotinylation site [posttranslational modification]; other site 316057006761 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 316057006762 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 316057006763 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 316057006764 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 316057006765 RNA binding site [nucleotide binding]; other site 316057006766 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 316057006767 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 316057006768 Predicted periplasmic protein [Function unknown]; Region: COG3904 316057006769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057006770 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 316057006771 dimer interface [polypeptide binding]; other site 316057006772 phosphorylation site [posttranslational modification] 316057006773 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 316057006774 ATP binding site [chemical binding]; other site 316057006775 G-X-G motif; other site 316057006776 Response regulator receiver domain; Region: Response_reg; pfam00072 316057006777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057006778 active site 316057006779 phosphorylation site [posttranslational modification] 316057006780 intermolecular recognition site; other site 316057006781 dimerization interface [polypeptide binding]; other site 316057006782 Cytochrome c; Region: Cytochrom_C; cl11414 316057006783 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057006784 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057006785 active site 316057006786 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057006787 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057006788 active site 316057006789 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057006790 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 316057006791 putative C-terminal domain interface [polypeptide binding]; other site 316057006792 putative GSH binding site (G-site) [chemical binding]; other site 316057006793 putative dimer interface [polypeptide binding]; other site 316057006794 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316057006795 N-terminal domain interface [polypeptide binding]; other site 316057006796 dimer interface [polypeptide binding]; other site 316057006797 substrate binding pocket (H-site) [chemical binding]; other site 316057006798 Helix-turn-helix domain; Region: HTH_18; pfam12833 316057006799 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 316057006800 acyl-CoA synthetase; Validated; Region: PRK08316 316057006801 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057006802 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057006803 acyl-activating enzyme (AAE) consensus motif; other site 316057006804 acyl-activating enzyme (AAE) consensus motif; other site 316057006805 putative AMP binding site [chemical binding]; other site 316057006806 putative active site [active] 316057006807 putative CoA binding site [chemical binding]; other site 316057006808 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 316057006809 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057006810 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316057006811 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057006812 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316057006813 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 316057006814 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 316057006815 carboxyltransferase (CT) interaction site; other site 316057006816 biotinylation site [posttranslational modification]; other site 316057006817 enoyl-CoA hydratase; Provisional; Region: PRK05995 316057006818 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 316057006819 substrate binding site [chemical binding]; other site 316057006820 oxyanion hole (OAH) forming residues; other site 316057006821 trimer interface [polypeptide binding]; other site 316057006822 acyl-CoA synthetase; Validated; Region: PRK06188 316057006823 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057006824 acyl-activating enzyme (AAE) consensus motif; other site 316057006825 putative AMP binding site [chemical binding]; other site 316057006826 putative active site [active] 316057006827 putative CoA binding site [chemical binding]; other site 316057006828 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316057006829 Beta-lactamase; Region: Beta-lactamase; pfam00144 316057006830 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 316057006831 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 316057006832 dimer interface [polypeptide binding]; other site 316057006833 active site 316057006834 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 316057006835 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316057006836 active site 316057006837 catalytic tetrad [active] 316057006838 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057006839 EamA-like transporter family; Region: EamA; pfam00892 316057006840 EamA-like transporter family; Region: EamA; cl17759 316057006841 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316057006842 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 316057006843 putative DNA binding site [nucleotide binding]; other site 316057006844 putative Zn2+ binding site [ion binding]; other site 316057006845 AsnC family; Region: AsnC_trans_reg; pfam01037 316057006846 Pyruvate dehydrogenase complex, dehydrogenase (E1) component [Energy production and conversion]; Region: AceE; COG2609 316057006847 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 316057006848 TPP-binding site [chemical binding]; other site 316057006849 PYR/PP interface [polypeptide binding]; other site 316057006850 dimer interface [polypeptide binding]; other site 316057006851 TPP binding site [chemical binding]; other site 316057006852 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 316057006853 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 316057006854 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316057006855 NAD binding site [chemical binding]; other site 316057006856 catalytic residues [active] 316057006857 dihydroxy-acid dehydratase; Validated; Region: PRK06131 316057006858 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 316057006859 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 316057006860 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 316057006861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057006862 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316057006863 NAD(P) binding site [chemical binding]; other site 316057006864 active site 316057006865 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 316057006866 dimerization interface [polypeptide binding]; other site 316057006867 putative DNA binding site [nucleotide binding]; other site 316057006868 putative Zn2+ binding site [ion binding]; other site 316057006869 hypothetical protein; Provisional; Region: PRK10396 316057006870 yecA family protein; Region: ygfB_yecA; TIGR02292 316057006871 SEC-C motif; Region: SEC-C; pfam02810 316057006872 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 316057006873 catalytic site [active] 316057006874 metal binding site [ion binding]; metal-binding site 316057006875 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 316057006876 sequence-specific DNA binding site [nucleotide binding]; other site 316057006877 salt bridge; other site 316057006878 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 316057006879 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 316057006880 ring oligomerisation interface [polypeptide binding]; other site 316057006881 ATP/Mg binding site [chemical binding]; other site 316057006882 stacking interactions; other site 316057006883 hinge regions; other site 316057006884 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 316057006885 oligomerisation interface [polypeptide binding]; other site 316057006886 mobile loop; other site 316057006887 roof hairpin; other site 316057006888 Usg-like family; Region: Usg; pfam06233 316057006889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 316057006890 AAA domain; Region: AAA_33; pfam13671 316057006891 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316057006892 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316057006893 Nucleoside recognition; Region: Gate; pfam07670 316057006894 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316057006895 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 316057006896 dimer interface [polypeptide binding]; other site 316057006897 active site 316057006898 catalytic residue [active] 316057006899 metal binding site [ion binding]; metal-binding site 316057006900 Cupin domain; Region: Cupin_2; pfam07883 316057006901 classical (c) SDRs; Region: SDR_c; cd05233 316057006902 NAD(P) binding site [chemical binding]; other site 316057006903 active site 316057006904 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 316057006905 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 316057006906 active site 316057006907 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057006908 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316057006909 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057006910 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 316057006911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 316057006912 Uncharacterized conserved protein [Function unknown]; Region: COG2308 316057006913 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 316057006914 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 316057006915 putative MPT binding site; other site 316057006916 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 316057006917 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316057006918 CoenzymeA binding site [chemical binding]; other site 316057006919 subunit interaction site [polypeptide binding]; other site 316057006920 PHB binding site; other site 316057006921 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057006922 active site 316057006923 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 316057006924 substrate binding site [chemical binding]; other site 316057006925 methionine synthase; Provisional; Region: PRK01207 316057006926 THF binding site; other site 316057006927 zinc-binding site [ion binding]; other site 316057006928 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 316057006929 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 316057006930 C-terminal domain interface [polypeptide binding]; other site 316057006931 GSH binding site (G-site) [chemical binding]; other site 316057006932 dimer interface [polypeptide binding]; other site 316057006933 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 316057006934 N-terminal domain interface [polypeptide binding]; other site 316057006935 putative dimer interface [polypeptide binding]; other site 316057006936 active site 316057006937 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 316057006938 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 316057006939 putative catalytic residue [active] 316057006940 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316057006941 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 316057006942 NAD(P) binding site [chemical binding]; other site 316057006943 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 316057006944 putative active site [active] 316057006945 putative catalytic site [active] 316057006946 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316057006947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057006948 NAD(P) binding site [chemical binding]; other site 316057006949 active site 316057006950 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 316057006951 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 316057006952 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 316057006953 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 316057006954 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316057006955 catalytic residue [active] 316057006956 ABC transporter ATPase component; Reviewed; Region: PRK11147 316057006957 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057006958 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057006959 hypothetical protein; Validated; Region: PRK00124 316057006960 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057006961 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057006962 putative ligand binding site [chemical binding]; other site 316057006963 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316057006964 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316057006965 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316057006966 exopolyphosphatase; Region: exo_poly_only; TIGR03706 316057006967 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316057006968 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 316057006969 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 316057006970 S-adenosylmethionine binding site [chemical binding]; other site 316057006971 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 316057006972 putative transporter; Provisional; Region: PRK10504 316057006973 putative substrate translocation pore; other site 316057006974 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 316057006975 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 316057006976 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 316057006977 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 316057006978 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 316057006979 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 316057006980 active site 316057006981 Prostaglandin dehydrogenases; Region: PGDH; cd05288 316057006982 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 316057006983 NAD(P) binding site [chemical binding]; other site 316057006984 substrate binding site [chemical binding]; other site 316057006985 dimer interface [polypeptide binding]; other site 316057006986 MAPEG family; Region: MAPEG; cl09190 316057006987 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 316057006988 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 316057006989 GMP synthase; Reviewed; Region: guaA; PRK00074 316057006990 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 316057006991 AMP/PPi binding site [chemical binding]; other site 316057006992 candidate oxyanion hole; other site 316057006993 catalytic triad [active] 316057006994 potential glutamine specificity residues [chemical binding]; other site 316057006995 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 316057006996 ATP Binding subdomain [chemical binding]; other site 316057006997 Ligand Binding sites [chemical binding]; other site 316057006998 Dimerization subdomain; other site 316057006999 Conjugal transfer protein TraD; Region: TraD; pfam06412 316057007000 Conjugal transfer protein TraD; Region: TraD; pfam06412 316057007001 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 316057007002 MobA/MobL family; Region: MobA_MobL; pfam03389 316057007003 AAA domain; Region: AAA_30; pfam13604 316057007004 Family description; Region: UvrD_C_2; pfam13538 316057007005 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 316057007006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316057007007 Transposase; Region: HTH_Tnp_1; pfam01527 316057007008 ParB-like nuclease domain; Region: ParBc; cl02129 316057007009 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 316057007010 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 316057007011 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057007012 active site 316057007013 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 316057007014 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 316057007015 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 316057007016 Uncharacterized conserved protein [Function unknown]; Region: COG2135 316057007017 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316057007018 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057007019 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 316057007020 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 316057007021 Family description; Region: UvrD_C_2; pfam13538 316057007022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057007023 AAA domain; Region: AAA_21; pfam13304 316057007024 Walker A/P-loop; other site 316057007025 ATP binding site [chemical binding]; other site 316057007026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057007027 Walker B; other site 316057007028 D-loop; other site 316057007029 H-loop/switch region; other site 316057007030 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 316057007031 putative active site [active] 316057007032 putative metal-binding site [ion binding]; other site 316057007033 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 316057007034 active site 316057007035 nucleophile elbow; other site 316057007036 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 316057007037 active site 316057007038 NTP binding site [chemical binding]; other site 316057007039 metal binding triad [ion binding]; metal-binding site 316057007040 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316057007041 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 316057007042 non-specific DNA binding site [nucleotide binding]; other site 316057007043 salt bridge; other site 316057007044 sequence-specific DNA binding site [nucleotide binding]; other site 316057007045 Domain of unknown function (DUF955); Region: DUF955; pfam06114 316057007046 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 316057007047 TPR repeat; Region: TPR_11; pfam13414 316057007048 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 316057007049 binding surface 316057007050 TPR motif; other site 316057007051 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 316057007052 binding surface 316057007053 TPR motif; other site 316057007054 TPR repeat; Region: TPR_11; pfam13414 316057007055 MGS-like domain; Region: MGS; smart00851 316057007056 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 316057007057 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 316057007058 inhibitor-cofactor binding pocket; inhibition site 316057007059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007060 catalytic residue [active] 316057007061 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 316057007062 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 316057007063 substrate-cofactor binding pocket; other site 316057007064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007065 catalytic residue [active] 316057007066 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 316057007067 dimer interface [polypeptide binding]; other site 316057007068 pyridoxamine kinase; Validated; Region: PRK05756 316057007069 pyridoxal binding site [chemical binding]; other site 316057007070 ATP binding site [chemical binding]; other site 316057007071 benzoate transporter; Region: benE; TIGR00843 316057007072 Benzoate membrane transport protein; Region: BenE; pfam03594 316057007073 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 316057007074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316057007075 DNA-binding site [nucleotide binding]; DNA binding site 316057007076 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 316057007077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007078 homodimer interface [polypeptide binding]; other site 316057007079 catalytic residue [active] 316057007080 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 316057007081 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 316057007082 dimer interface [polypeptide binding]; other site 316057007083 active site 316057007084 glycine-pyridoxal phosphate binding site [chemical binding]; other site 316057007085 folate binding site [chemical binding]; other site 316057007086 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 316057007087 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316057007088 catalytic residue [active] 316057007089 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 316057007090 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 316057007091 DNA binding residues [nucleotide binding] 316057007092 dimer interface [polypeptide binding]; other site 316057007093 copper binding site [ion binding]; other site 316057007094 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 316057007095 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 316057007096 metal-binding site [ion binding] 316057007097 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 316057007098 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 316057007099 metal-binding site [ion binding] 316057007100 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057007101 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 316057007102 motif II; other site 316057007103 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 316057007104 metal-binding site [ion binding] 316057007105 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316057007106 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057007107 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057007108 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057007109 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 316057007110 active site 316057007111 SAM binding site [chemical binding]; other site 316057007112 homodimer interface [polypeptide binding]; other site 316057007113 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 316057007114 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 316057007115 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 316057007116 active site 316057007117 SAM binding site [chemical binding]; other site 316057007118 homodimer interface [polypeptide binding]; other site 316057007119 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 316057007120 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 316057007121 active site 316057007122 SAM binding site [chemical binding]; other site 316057007123 putative homodimer interface [polypeptide binding]; other site 316057007124 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 316057007125 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 316057007126 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 316057007127 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 316057007128 active site 316057007129 SAM binding site [chemical binding]; other site 316057007130 homodimer interface [polypeptide binding]; other site 316057007131 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 316057007132 active site 316057007133 SAM binding site [chemical binding]; other site 316057007134 homodimer interface [polypeptide binding]; other site 316057007135 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 316057007136 Precorrin-8X methylmutase; Region: CbiC; pfam02570 316057007137 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 316057007138 CitB domain protein; Region: CitB; TIGR02484 316057007139 tricarballylate dehydrogenase; Validated; Region: PRK08274 316057007140 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 316057007141 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 316057007142 putative dimer interface [polypeptide binding]; other site 316057007143 active site pocket [active] 316057007144 putative cataytic base [active] 316057007145 cobalamin synthase; Reviewed; Region: cobS; PRK00235 316057007146 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 316057007147 active site 316057007148 SAM binding site [chemical binding]; other site 316057007149 homodimer interface [polypeptide binding]; other site 316057007150 pyruvate kinase; Validated; Region: PRK08187 316057007151 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 316057007152 active site 316057007153 domain interfaces; other site 316057007154 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 316057007155 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 316057007156 ArsC family; Region: ArsC; pfam03960 316057007157 putative catalytic residues [active] 316057007158 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057007159 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057007160 Walker A/P-loop; other site 316057007161 ATP binding site [chemical binding]; other site 316057007162 Q-loop/lid; other site 316057007163 ABC transporter signature motif; other site 316057007164 Walker B; other site 316057007165 D-loop; other site 316057007166 H-loop/switch region; other site 316057007167 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057007168 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057007169 Walker A/P-loop; other site 316057007170 ATP binding site [chemical binding]; other site 316057007171 Q-loop/lid; other site 316057007172 ABC transporter signature motif; other site 316057007173 Walker B; other site 316057007174 D-loop; other site 316057007175 H-loop/switch region; other site 316057007176 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057007177 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057007178 TM-ABC transporter signature motif; other site 316057007179 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057007180 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057007181 TM-ABC transporter signature motif; other site 316057007182 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 316057007183 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 316057007184 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 316057007185 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316057007186 multidrug efflux system protein; Provisional; Region: PRK11431 316057007187 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 316057007188 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 316057007189 G1 box; other site 316057007190 putative GEF interaction site [polypeptide binding]; other site 316057007191 GTP/Mg2+ binding site [chemical binding]; other site 316057007192 Switch I region; other site 316057007193 G2 box; other site 316057007194 G3 box; other site 316057007195 Switch II region; other site 316057007196 G4 box; other site 316057007197 G5 box; other site 316057007198 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 316057007199 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 316057007200 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 316057007201 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316057007202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057007203 NAD(P) binding site [chemical binding]; other site 316057007204 active site 316057007205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057007206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057007207 LTXXQ motif family protein; Region: LTXXQ; pfam07813 316057007208 Tetratricopeptide repeat; Region: TPR_9; pfam13371 316057007209 FecR protein; Region: FecR; pfam04773 316057007210 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 316057007211 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 316057007212 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316057007213 cyclase homology domain; Region: CHD; cd07302 316057007214 nucleotidyl binding site; other site 316057007215 metal binding site [ion binding]; metal-binding site 316057007216 dimer interface [polypeptide binding]; other site 316057007217 CHASE3 domain; Region: CHASE3; pfam05227 316057007218 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 316057007219 dimer interface [polypeptide binding]; other site 316057007220 phosphorylation site [posttranslational modification] 316057007221 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 316057007222 ATP binding site [chemical binding]; other site 316057007223 Mg2+ binding site [ion binding]; other site 316057007224 G-X-G motif; other site 316057007225 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 316057007226 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316057007227 Walker A/P-loop; other site 316057007228 ATP binding site [chemical binding]; other site 316057007229 Q-loop/lid; other site 316057007230 ABC transporter signature motif; other site 316057007231 Walker B; other site 316057007232 D-loop; other site 316057007233 H-loop/switch region; other site 316057007234 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316057007235 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 316057007236 ABC-ATPase subunit interface; other site 316057007237 dimer interface [polypeptide binding]; other site 316057007238 putative PBP binding regions; other site 316057007239 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 316057007240 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 316057007241 putative hemin binding site; other site 316057007242 Hemin uptake protein hemP; Region: hemP; pfam10636 316057007243 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 316057007244 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 316057007245 FeS/SAM binding site; other site 316057007246 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 316057007247 NADH(P)-binding; Region: NAD_binding_10; pfam13460 316057007248 NAD(P) binding site [chemical binding]; other site 316057007249 putative active site [active] 316057007250 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 316057007251 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 316057007252 N-terminal plug; other site 316057007253 ligand-binding site [chemical binding]; other site 316057007254 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 316057007255 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 316057007256 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316057007257 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316057007258 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 316057007259 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 316057007260 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316057007261 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316057007262 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316057007263 Bacterial transcriptional regulator; Region: IclR; pfam01614 316057007264 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057007265 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 316057007266 ligand binding site [chemical binding]; other site 316057007267 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057007268 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057007269 TM-ABC transporter signature motif; other site 316057007270 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057007271 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057007272 TM-ABC transporter signature motif; other site 316057007273 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057007274 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057007275 Walker A/P-loop; other site 316057007276 ATP binding site [chemical binding]; other site 316057007277 Q-loop/lid; other site 316057007278 ABC transporter signature motif; other site 316057007279 Walker B; other site 316057007280 D-loop; other site 316057007281 H-loop/switch region; other site 316057007282 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057007283 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057007284 Walker A/P-loop; other site 316057007285 ATP binding site [chemical binding]; other site 316057007286 Q-loop/lid; other site 316057007287 ABC transporter signature motif; other site 316057007288 Walker B; other site 316057007289 D-loop; other site 316057007290 H-loop/switch region; other site 316057007291 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 316057007292 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 316057007293 inhibitor-cofactor binding pocket; inhibition site 316057007294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007295 catalytic residue [active] 316057007296 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 316057007297 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 316057007298 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 316057007299 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 316057007300 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 316057007301 flagellin; Reviewed; Region: PRK12688 316057007302 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316057007303 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316057007304 Flagellar protein FlbT; Region: FlbT; cl11455 316057007305 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057007306 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 316057007307 DNA binding residues [nucleotide binding] 316057007308 dimerization interface [polypeptide binding]; other site 316057007309 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057007310 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 316057007311 DNA binding residues [nucleotide binding] 316057007312 dimerization interface [polypeptide binding]; other site 316057007313 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 316057007314 thioredoxin 2; Provisional; Region: PRK10996 316057007315 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 316057007316 catalytic residues [active] 316057007317 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 316057007318 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 316057007319 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316057007320 Phytochrome region; Region: PHY; pfam00360 316057007321 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 316057007322 dimer interface [polypeptide binding]; other site 316057007323 phosphorylation site [posttranslational modification] 316057007324 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 316057007325 ATP binding site [chemical binding]; other site 316057007326 Mg2+ binding site [ion binding]; other site 316057007327 G-X-G motif; other site 316057007328 Ion channel; Region: Ion_trans_2; pfam07885 316057007329 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 316057007330 TrkA-N domain; Region: TrkA_N; pfam02254 316057007331 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 316057007332 TrkA-N domain; Region: TrkA_N; pfam02254 316057007333 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 316057007334 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 316057007335 CoenzymeA binding site [chemical binding]; other site 316057007336 subunit interaction site [polypeptide binding]; other site 316057007337 PHB binding site; other site 316057007338 Predicted transcriptional regulators [Transcription]; Region: COG1695 316057007339 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 316057007340 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 316057007341 active site 316057007342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057007343 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316057007344 Walker A/P-loop; other site 316057007345 ATP binding site [chemical binding]; other site 316057007346 Q-loop/lid; other site 316057007347 ABC transporter signature motif; other site 316057007348 Walker B; other site 316057007349 D-loop; other site 316057007350 H-loop/switch region; other site 316057007351 HTH-like domain; Region: HTH_21; pfam13276 316057007352 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057007353 Response regulator receiver domain; Region: Response_reg; pfam00072 316057007354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007355 active site 316057007356 phosphorylation site [posttranslational modification] 316057007357 intermolecular recognition site; other site 316057007358 dimerization interface [polypeptide binding]; other site 316057007359 PUCC protein; Region: PUCC; pfam03209 316057007360 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057007361 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057007362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007363 active site 316057007364 phosphorylation site [posttranslational modification] 316057007365 intermolecular recognition site; other site 316057007366 dimerization interface [polypeptide binding]; other site 316057007367 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 316057007368 DNA binding residues [nucleotide binding] 316057007369 dimerization interface [polypeptide binding]; other site 316057007370 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 316057007371 GAF domain; Region: GAF; pfam01590 316057007372 Phytochrome region; Region: PHY; pfam00360 316057007373 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 316057007374 dimer interface [polypeptide binding]; other site 316057007375 phosphorylation site [posttranslational modification] 316057007376 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 316057007377 ATP binding site [chemical binding]; other site 316057007378 Mg2+ binding site [ion binding]; other site 316057007379 G-X-G motif; other site 316057007380 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 316057007381 GAF domain; Region: GAF; pfam01590 316057007382 Phytochrome region; Region: PHY; pfam00360 316057007383 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 316057007384 dimer interface [polypeptide binding]; other site 316057007385 phosphorylation site [posttranslational modification] 316057007386 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 316057007387 ATP binding site [chemical binding]; other site 316057007388 Mg2+ binding site [ion binding]; other site 316057007389 G-X-G motif; other site 316057007390 Response regulator receiver domain; Region: Response_reg; pfam00072 316057007391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007392 active site 316057007393 phosphorylation site [posttranslational modification] 316057007394 intermolecular recognition site; other site 316057007395 dimerization interface [polypeptide binding]; other site 316057007396 Response regulator receiver domain; Region: Response_reg; pfam00072 316057007397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007398 active site 316057007399 phosphorylation site [posttranslational modification] 316057007400 intermolecular recognition site; other site 316057007401 dimerization interface [polypeptide binding]; other site 316057007402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 316057007403 Histidine kinase; Region: HisKA_3; pfam07730 316057007404 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 316057007405 ATP binding site [chemical binding]; other site 316057007406 Mg2+ binding site [ion binding]; other site 316057007407 G-X-G motif; other site 316057007408 Helix-turn-helix domain; Region: HTH_18; pfam12833 316057007409 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 316057007410 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 316057007411 nickel responsive regulator; Provisional; Region: PRK02967 316057007412 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 316057007413 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 316057007414 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316057007415 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 316057007416 Porin subfamily; Region: Porin_2; pfam02530 316057007417 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 316057007418 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 316057007419 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057007420 catalytic residue [active] 316057007421 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057007422 EamA-like transporter family; Region: EamA; pfam00892 316057007423 BA14K-like protein; Region: BA14K; pfam07886 316057007424 NADH dehydrogenase; Validated; Region: PRK08183 316057007425 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 316057007426 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 316057007427 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316057007428 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316057007429 classical (c) SDRs; Region: SDR_c; cd05233 316057007430 NAD(P) binding site [chemical binding]; other site 316057007431 active site 316057007432 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 316057007433 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316057007434 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057007435 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 316057007436 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 316057007437 Response regulator receiver domain; Region: Response_reg; pfam00072 316057007438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007439 active site 316057007440 phosphorylation site [posttranslational modification] 316057007441 intermolecular recognition site; other site 316057007442 dimerization interface [polypeptide binding]; other site 316057007443 Histidine kinase; Region: HisKA_2; pfam07568 316057007444 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 316057007445 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 316057007446 ATP binding site [chemical binding]; other site 316057007447 Mg2+ binding site [ion binding]; other site 316057007448 G-X-G motif; other site 316057007449 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057007450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007451 active site 316057007452 phosphorylation site [posttranslational modification] 316057007453 intermolecular recognition site; other site 316057007454 dimerization interface [polypeptide binding]; other site 316057007455 CHASE3 domain; Region: CHASE3; pfam05227 316057007456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057007457 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 316057007458 dimer interface [polypeptide binding]; other site 316057007459 phosphorylation site [posttranslational modification] 316057007460 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 316057007461 ATP binding site [chemical binding]; other site 316057007462 Mg2+ binding site [ion binding]; other site 316057007463 G-X-G motif; other site 316057007464 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 316057007465 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057007466 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316057007467 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316057007468 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 316057007469 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 316057007470 carboxyltransferase (CT) interaction site; other site 316057007471 biotinylation site [posttranslational modification]; other site 316057007472 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 316057007473 Dehydroquinase class II; Region: DHquinase_II; pfam01220 316057007474 trimer interface [polypeptide binding]; other site 316057007475 active site 316057007476 dimer interface [polypeptide binding]; other site 316057007477 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 316057007478 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 316057007479 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 316057007480 catalytic residues [active] 316057007481 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 316057007482 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 316057007483 dimer interface [polypeptide binding]; other site 316057007484 decamer (pentamer of dimers) interface [polypeptide binding]; other site 316057007485 catalytic triad [active] 316057007486 BA14K-like protein; Region: BA14K; pfam07886 316057007487 Peptidase family M48; Region: Peptidase_M48; cl12018 316057007488 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 316057007489 binding surface 316057007490 TPR motif; other site 316057007491 TPR repeat; Region: TPR_11; pfam13414 316057007492 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 316057007493 binding surface 316057007494 TPR motif; other site 316057007495 aspartate aminotransferase; Provisional; Region: PRK05764 316057007496 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 316057007497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007498 homodimer interface [polypeptide binding]; other site 316057007499 catalytic residue [active] 316057007500 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 316057007501 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 316057007502 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 316057007503 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 316057007504 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 316057007505 AMIN domain; Region: AMIN; pfam11741 316057007506 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 316057007507 active site 316057007508 metal binding site [ion binding]; metal-binding site 316057007509 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 316057007510 Transglycosylase; Region: Transgly; pfam00912 316057007511 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316057007512 peptide chain release factor 2; Provisional; Region: PRK07342 316057007513 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316057007514 RF-1 domain; Region: RF-1; pfam00472 316057007515 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316057007516 Peptidase family M23; Region: Peptidase_M23; pfam01551 316057007517 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 316057007518 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 316057007519 catalytic triad [active] 316057007520 Protein of unknown function; Region: DUF3971; pfam13116 316057007521 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316057007522 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316057007523 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 316057007524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057007525 putative substrate translocation pore; other site 316057007526 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 316057007527 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 316057007528 active site 316057007529 HIGH motif; other site 316057007530 dimer interface [polypeptide binding]; other site 316057007531 KMSKS motif; other site 316057007532 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 316057007533 RNA binding surface [nucleotide binding]; other site 316057007534 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 316057007535 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 316057007536 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 316057007537 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 316057007538 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057007539 catalytic residue [active] 316057007540 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 316057007541 putative ABC transporter; Region: ycf24; CHL00085 316057007542 FeS assembly ATPase SufC; Region: sufC; TIGR01978 316057007543 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 316057007544 Walker A/P-loop; other site 316057007545 ATP binding site [chemical binding]; other site 316057007546 Q-loop/lid; other site 316057007547 ABC transporter signature motif; other site 316057007548 Walker B; other site 316057007549 D-loop; other site 316057007550 H-loop/switch region; other site 316057007551 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 316057007552 FeS assembly protein SufD; Region: sufD; TIGR01981 316057007553 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 316057007554 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 316057007555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057007556 catalytic residue [active] 316057007557 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 316057007558 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316057007559 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057007560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057007561 metal binding site [ion binding]; metal-binding site 316057007562 active site 316057007563 I-site; other site 316057007564 helicase 45; Provisional; Region: PTZ00424 316057007565 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 316057007566 ATP binding site [chemical binding]; other site 316057007567 Mg++ binding site [ion binding]; other site 316057007568 motif III; other site 316057007569 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 316057007570 nucleotide binding region [chemical binding]; other site 316057007571 ATP-binding site [chemical binding]; other site 316057007572 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316057007573 Helix-turn-helix domain; Region: HTH_18; pfam12833 316057007574 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316057007575 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057007576 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057007577 dimer interface [polypeptide binding]; other site 316057007578 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057007579 putative CheW interface [polypeptide binding]; other site 316057007580 Caspase domain; Region: Peptidase_C14; pfam00656 316057007581 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 316057007582 amphipathic channel; other site 316057007583 Asn-Pro-Ala signature motifs; other site 316057007584 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 316057007585 binding surface 316057007586 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316057007587 TPR motif; other site 316057007588 TPR repeat; Region: TPR_11; pfam13414 316057007589 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 316057007590 binding surface 316057007591 TPR motif; other site 316057007592 TPR repeat; Region: TPR_11; pfam13414 316057007593 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 316057007594 binding surface 316057007595 TPR motif; other site 316057007596 TPR repeat; Region: TPR_11; pfam13414 316057007597 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 316057007598 TPR repeat; Region: TPR_11; pfam13414 316057007599 binding surface 316057007600 TPR motif; other site 316057007601 Caspase domain; Region: Peptidase_C14; pfam00656 316057007602 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057007603 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316057007604 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 316057007605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057007606 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 316057007607 dimerization interface [polypeptide binding]; other site 316057007608 substrate binding pocket [chemical binding]; other site 316057007609 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 316057007610 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316057007611 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057007612 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057007613 putative ligand binding site [chemical binding]; other site 316057007614 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 316057007615 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 316057007616 TOBE domain; Region: TOBE; cl01440 316057007617 TOBE domain; Region: TOBE; cl01440 316057007618 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316057007619 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 316057007620 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316057007621 Walker A/P-loop; other site 316057007622 ATP binding site [chemical binding]; other site 316057007623 Q-loop/lid; other site 316057007624 ABC transporter signature motif; other site 316057007625 Walker B; other site 316057007626 D-loop; other site 316057007627 H-loop/switch region; other site 316057007628 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 316057007629 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 316057007630 ABC-ATPase subunit interface; other site 316057007631 dimer interface [polypeptide binding]; other site 316057007632 putative PBP binding regions; other site 316057007633 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 316057007634 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 316057007635 putative metal binding site [ion binding]; other site 316057007636 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 316057007637 homodimer interaction site [polypeptide binding]; other site 316057007638 cofactor binding site; other site 316057007639 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316057007640 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 316057007641 N-terminal plug; other site 316057007642 ligand-binding site [chemical binding]; other site 316057007643 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 316057007644 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 316057007645 Mg2+ binding site [ion binding]; other site 316057007646 G-X-G motif; other site 316057007647 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 316057007648 anchoring element; other site 316057007649 dimer interface [polypeptide binding]; other site 316057007650 ATP binding site [chemical binding]; other site 316057007651 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 316057007652 active site 316057007653 metal binding site [ion binding]; metal-binding site 316057007654 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316057007655 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316057007656 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316057007657 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057007658 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 316057007659 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 316057007660 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316057007661 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316057007662 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 316057007663 S-adenosylmethionine binding site [chemical binding]; other site 316057007664 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 316057007665 Radical SAM superfamily; Region: Radical_SAM; pfam04055 316057007666 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 316057007667 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 316057007668 aminotransferase; Validated; Region: PRK09148 316057007669 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 316057007670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007671 homodimer interface [polypeptide binding]; other site 316057007672 catalytic residue [active] 316057007673 homoserine dehydrogenase; Provisional; Region: PRK06349 316057007674 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316057007675 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 316057007676 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 316057007677 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 316057007678 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 316057007679 putative active site [active] 316057007680 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057007681 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 316057007682 Coenzyme A binding pocket [chemical binding]; other site 316057007683 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 316057007684 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 316057007685 motif II; other site 316057007686 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 316057007687 DHH family; Region: DHH; pfam01368 316057007688 DHHA1 domain; Region: DHHA1; pfam02272 316057007689 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316057007690 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316057007691 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 316057007692 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057007693 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057007694 Peptidase family M23; Region: Peptidase_M23; pfam01551 316057007695 elongation factor P; Validated; Region: PRK00529 316057007696 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 316057007697 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 316057007698 RNA binding site [nucleotide binding]; other site 316057007699 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 316057007700 RNA binding site [nucleotide binding]; other site 316057007701 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 316057007702 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 316057007703 dimer interface [polypeptide binding]; other site 316057007704 active site 316057007705 motif 2; other site 316057007706 motif 3; other site 316057007707 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 316057007708 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 316057007709 FeS/SAM binding site; other site 316057007710 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 316057007711 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 316057007712 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057007713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007714 active site 316057007715 phosphorylation site [posttranslational modification] 316057007716 intermolecular recognition site; other site 316057007717 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 316057007718 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 316057007719 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057007720 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 316057007721 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 316057007722 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057007723 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 316057007724 dimer interface [polypeptide binding]; other site 316057007725 phosphorylation site [posttranslational modification] 316057007726 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 316057007727 ATP binding site [chemical binding]; other site 316057007728 Mg2+ binding site [ion binding]; other site 316057007729 G-X-G motif; other site 316057007730 Response regulator receiver domain; Region: Response_reg; pfam00072 316057007731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007732 active site 316057007733 phosphorylation site [posttranslational modification] 316057007734 intermolecular recognition site; other site 316057007735 dimerization interface [polypeptide binding]; other site 316057007736 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057007737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007738 active site 316057007739 phosphorylation site [posttranslational modification] 316057007740 intermolecular recognition site; other site 316057007741 dimerization interface [polypeptide binding]; other site 316057007742 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 316057007743 DNA binding site [nucleotide binding] 316057007744 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057007745 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 316057007746 ligand binding site [chemical binding]; other site 316057007747 flexible hinge region; other site 316057007748 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057007749 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316057007750 Sulfatase; Region: Sulfatase; pfam00884 316057007751 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 316057007752 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 316057007753 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316057007754 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057007755 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 316057007756 amphipathic channel; other site 316057007757 Asn-Pro-Ala signature motifs; other site 316057007758 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 316057007759 substrate binding pocket [chemical binding]; other site 316057007760 membrane-bound complex binding site; other site 316057007761 hinge residues; other site 316057007762 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 316057007763 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057007764 catalytic residue [active] 316057007765 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316057007766 Sulfatase; Region: Sulfatase; pfam00884 316057007767 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 316057007768 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 316057007769 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 316057007770 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 316057007771 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316057007772 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 316057007773 TPR motif; other site 316057007774 binding surface 316057007775 TPR repeat; Region: TPR_11; pfam13414 316057007776 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 316057007777 TPR motif; other site 316057007778 binding surface 316057007779 PilZ domain; Region: PilZ; pfam07238 316057007780 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057007781 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 316057007782 dimer interface [polypeptide binding]; other site 316057007783 active site 316057007784 metal binding site [ion binding]; metal-binding site 316057007785 glutathione binding site [chemical binding]; other site 316057007786 NAD-dependent deacetylase; Provisional; Region: PRK00481 316057007787 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 316057007788 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 316057007789 DNA-binding site [nucleotide binding]; DNA binding site 316057007790 RNA-binding motif; other site 316057007791 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 316057007792 DNA-binding site [nucleotide binding]; DNA binding site 316057007793 RNA-binding motif; other site 316057007794 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 316057007795 OpgC protein; Region: OpgC_C; pfam10129 316057007796 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316057007797 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 316057007798 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 316057007799 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057007800 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057007801 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316057007802 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057007803 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057007804 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316057007805 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 316057007806 carboxyltransferase (CT) interaction site; other site 316057007807 biotinylation site [posttranslational modification]; other site 316057007808 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 316057007809 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 316057007810 active site 316057007811 catalytic residues [active] 316057007812 metal binding site [ion binding]; metal-binding site 316057007813 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 316057007814 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 316057007815 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316057007816 Uncharacterized conserved protein [Function unknown]; Region: COG2966 316057007817 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 316057007818 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 316057007819 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057007820 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 316057007821 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 316057007822 Domain of unknown function (DUF378); Region: DUF378; pfam04070 316057007823 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 316057007824 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 316057007825 PEGA domain; Region: PEGA; pfam08308 316057007826 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 316057007827 MG2 domain; Region: A2M_N; pfam01835 316057007828 Alpha-2-macroglobulin family; Region: A2M; pfam00207 316057007829 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 316057007830 surface patch; other site 316057007831 thioester region; other site 316057007832 specificity defining residues; other site 316057007833 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 316057007834 Transglycosylase; Region: Transgly; pfam00912 316057007835 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316057007836 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 316057007837 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 316057007838 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 316057007839 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 316057007840 active site 316057007841 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 316057007842 Ligand binding site; other site 316057007843 Putative Catalytic site; other site 316057007844 DXD motif; other site 316057007845 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 316057007846 cystathionine beta-lyase; Provisional; Region: PRK09028 316057007847 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 316057007848 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057007849 catalytic residue [active] 316057007850 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 316057007851 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 316057007852 substrate binding pocket [chemical binding]; other site 316057007853 membrane-bound complex binding site; other site 316057007854 hinge residues; other site 316057007855 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 316057007856 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 316057007857 conserved gate region; other site 316057007858 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 316057007859 dimer interface [polypeptide binding]; other site 316057007860 ABC-ATPase subunit interface; other site 316057007861 putative PBP binding loops; other site 316057007862 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 316057007863 dimer interface [polypeptide binding]; other site 316057007864 conserved gate region; other site 316057007865 putative PBP binding loops; other site 316057007866 ABC-ATPase subunit interface; other site 316057007867 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316057007868 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316057007869 Walker A/P-loop; other site 316057007870 ATP binding site [chemical binding]; other site 316057007871 Q-loop/lid; other site 316057007872 ABC transporter signature motif; other site 316057007873 Walker B; other site 316057007874 D-loop; other site 316057007875 H-loop/switch region; other site 316057007876 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316057007877 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 316057007878 dimer interface [polypeptide binding]; other site 316057007879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007880 catalytic residue [active] 316057007881 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 316057007882 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 316057007883 S-adenosylmethionine binding site [chemical binding]; other site 316057007884 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 316057007885 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 316057007886 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057007887 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 316057007888 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 316057007889 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057007890 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057007891 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 316057007892 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 316057007893 DTW domain; Region: DTW; cl01221 316057007894 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 316057007895 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 316057007896 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316057007897 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 316057007898 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 316057007899 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316057007900 HIGH motif; other site 316057007901 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316057007902 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316057007903 active site 316057007904 KMSKS motif; other site 316057007905 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 316057007906 tRNA binding surface [nucleotide binding]; other site 316057007907 anticodon binding site; other site 316057007908 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 316057007909 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 316057007910 DNA binding site [nucleotide binding] 316057007911 active site 316057007912 lipoyl synthase; Provisional; Region: PRK05481 316057007913 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 316057007914 FeS/SAM binding site; other site 316057007915 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 316057007916 putative coenzyme Q binding site [chemical binding]; other site 316057007917 Competence-damaged protein; Region: CinA; pfam02464 316057007918 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 316057007919 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 316057007920 substrate binding site; other site 316057007921 dimer interface; other site 316057007922 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 316057007923 homotrimer interaction site [polypeptide binding]; other site 316057007924 zinc binding site [ion binding]; other site 316057007925 CDP-binding sites; other site 316057007926 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 316057007927 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 316057007928 FMN binding site [chemical binding]; other site 316057007929 active site 316057007930 catalytic residues [active] 316057007931 substrate binding site [chemical binding]; other site 316057007932 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316057007933 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 316057007934 putative active site [active] 316057007935 heme pocket [chemical binding]; other site 316057007936 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 316057007937 dimer interface [polypeptide binding]; other site 316057007938 phosphorylation site [posttranslational modification] 316057007939 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 316057007940 ATP binding site [chemical binding]; other site 316057007941 Mg2+ binding site [ion binding]; other site 316057007942 G-X-G motif; other site 316057007943 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 316057007944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007945 active site 316057007946 phosphorylation site [posttranslational modification] 316057007947 intermolecular recognition site; other site 316057007948 dimerization interface [polypeptide binding]; other site 316057007949 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 316057007950 Walker A motif; other site 316057007951 ATP binding site [chemical binding]; other site 316057007952 Walker B motif; other site 316057007953 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 316057007954 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 316057007955 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 316057007956 dimerization interface [polypeptide binding]; other site 316057007957 PAS domain; Region: PAS; smart00091 316057007958 putative active site [active] 316057007959 heme pocket [chemical binding]; other site 316057007960 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 316057007961 dimer interface [polypeptide binding]; other site 316057007962 phosphorylation site [posttranslational modification] 316057007963 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 316057007964 ATP binding site [chemical binding]; other site 316057007965 Mg2+ binding site [ion binding]; other site 316057007966 G-X-G motif; other site 316057007967 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316057007968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057007969 active site 316057007970 phosphorylation site [posttranslational modification] 316057007971 intermolecular recognition site; other site 316057007972 dimerization interface [polypeptide binding]; other site 316057007973 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 316057007974 Walker A motif; other site 316057007975 ATP binding site [chemical binding]; other site 316057007976 Walker B motif; other site 316057007977 arginine finger; other site 316057007978 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057007979 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316057007980 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 316057007981 homodimer interface [polypeptide binding]; other site 316057007982 substrate-cofactor binding pocket; other site 316057007983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057007984 catalytic residue [active] 316057007985 bacterial Hfq-like; Region: Hfq; cd01716 316057007986 hexamer interface [polypeptide binding]; other site 316057007987 Sm1 motif; other site 316057007988 RNA binding site [nucleotide binding]; other site 316057007989 Sm2 motif; other site 316057007990 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 316057007991 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 316057007992 HflX GTPase family; Region: HflX; cd01878 316057007993 G1 box; other site 316057007994 GTP/Mg2+ binding site [chemical binding]; other site 316057007995 Switch I region; other site 316057007996 G2 box; other site 316057007997 G3 box; other site 316057007998 Switch II region; other site 316057007999 G4 box; other site 316057008000 G5 box; other site 316057008001 DNA gyrase subunit A; Validated; Region: PRK05560 316057008002 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 316057008003 CAP-like domain; other site 316057008004 active site 316057008005 primary dimer interface [polypeptide binding]; other site 316057008006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316057008007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316057008008 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316057008009 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316057008010 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316057008011 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 316057008012 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 316057008013 active site 316057008014 (T/H)XGH motif; other site 316057008015 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 316057008016 active site 316057008017 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 316057008018 active site 316057008019 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 316057008020 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 316057008021 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 316057008022 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 316057008023 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 316057008024 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057008025 EamA-like transporter family; Region: EamA; pfam00892 316057008026 EamA-like transporter family; Region: EamA; pfam00892 316057008027 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 316057008028 homotrimer interaction site [polypeptide binding]; other site 316057008029 putative active site [active] 316057008030 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057008031 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057008032 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 316057008033 putative active site [active] 316057008034 putative substrate binding site [chemical binding]; other site 316057008035 putative cosubstrate binding site; other site 316057008036 catalytic site [active] 316057008037 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 316057008038 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316057008039 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 316057008040 Ligand binding site; other site 316057008041 DXD motif; other site 316057008042 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 316057008043 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 316057008044 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 316057008045 Substrate binding site; other site 316057008046 Mg++ binding site; other site 316057008047 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 316057008048 active site 316057008049 substrate binding site [chemical binding]; other site 316057008050 CoA binding site [chemical binding]; other site 316057008051 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 316057008052 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 316057008053 glutaminase active site [active] 316057008054 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 316057008055 dimer interface [polypeptide binding]; other site 316057008056 active site 316057008057 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 316057008058 dimer interface [polypeptide binding]; other site 316057008059 active site 316057008060 Uncharacterized conserved protein [Function unknown]; Region: COG2928 316057008061 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 316057008062 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 316057008063 generic binding surface II; other site 316057008064 ssDNA binding site; other site 316057008065 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 316057008066 ATP binding site [chemical binding]; other site 316057008067 putative Mg++ binding site [ion binding]; other site 316057008068 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 316057008069 nucleotide binding region [chemical binding]; other site 316057008070 ATP-binding site [chemical binding]; other site 316057008071 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 316057008072 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 316057008073 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 316057008074 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 316057008075 ATP binding site [chemical binding]; other site 316057008076 putative Mg++ binding site [ion binding]; other site 316057008077 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 316057008078 nucleotide binding region [chemical binding]; other site 316057008079 ATP-binding site [chemical binding]; other site 316057008080 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 316057008081 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057008082 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057008083 acyl-activating enzyme (AAE) consensus motif; other site 316057008084 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316057008085 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 316057008086 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 316057008087 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 316057008088 Predicted permeases [General function prediction only]; Region: COG0679 316057008089 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 316057008090 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057008091 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 316057008092 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316057008093 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 316057008094 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 316057008095 NADP binding site [chemical binding]; other site 316057008096 dimer interface [polypeptide binding]; other site 316057008097 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 316057008098 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316057008099 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 316057008100 FeS/SAM binding site; other site 316057008101 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 316057008102 putative active site [active] 316057008103 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 316057008104 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 316057008105 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 316057008106 hypothetical protein; Validated; Region: PRK08245 316057008107 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 316057008108 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316057008109 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316057008110 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 316057008111 dimer interface [polypeptide binding]; other site 316057008112 active site 316057008113 catalytic residue [active] 316057008114 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 316057008115 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 316057008116 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 316057008117 SmpB-tmRNA interface; other site 316057008118 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 316057008119 catalytic triad [active] 316057008120 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 316057008121 Fe-S cluster binding site [ion binding]; other site 316057008122 DNA binding site [nucleotide binding] 316057008123 active site 316057008124 LabA_like proteins; Region: LabA; cd10911 316057008125 Uncharacterized conserved protein [Function unknown]; Region: COG1432 316057008126 putative metal binding site [ion binding]; other site 316057008127 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 316057008128 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 316057008129 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316057008130 Zn2+ binding site [ion binding]; other site 316057008131 Mg2+ binding site [ion binding]; other site 316057008132 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 316057008133 synthetase active site [active] 316057008134 NTP binding site [chemical binding]; other site 316057008135 metal binding site [ion binding]; metal-binding site 316057008136 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 316057008137 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 316057008138 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 316057008139 active site 316057008140 hydrophilic channel; other site 316057008141 dimerization interface [polypeptide binding]; other site 316057008142 catalytic residues [active] 316057008143 active site lid [active] 316057008144 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 316057008145 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 316057008146 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 316057008147 Catalytic site [active] 316057008148 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 316057008149 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 316057008150 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 316057008151 dimerization interface [polypeptide binding]; other site 316057008152 active site 316057008153 metal binding site [ion binding]; metal-binding site 316057008154 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 316057008155 dsRNA binding site [nucleotide binding]; other site 316057008156 GTPase Era; Reviewed; Region: era; PRK00089 316057008157 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 316057008158 G1 box; other site 316057008159 GTP/Mg2+ binding site [chemical binding]; other site 316057008160 Switch I region; other site 316057008161 G2 box; other site 316057008162 Switch II region; other site 316057008163 G3 box; other site 316057008164 G4 box; other site 316057008165 G5 box; other site 316057008166 KH domain; Region: KH_2; pfam07650 316057008167 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 316057008168 Recombination protein O N terminal; Region: RecO_N; pfam11967 316057008169 Recombination protein O C terminal; Region: RecO_C; pfam02565 316057008170 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 316057008171 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 316057008172 CAP-like domain; other site 316057008173 active site 316057008174 primary dimer interface [polypeptide binding]; other site 316057008175 manganese transport protein MntH; Reviewed; Region: PRK00701 316057008176 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 316057008177 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 316057008178 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 316057008179 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 316057008180 Predicted membrane protein/domain [Function unknown]; Region: COG1714 316057008181 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 316057008182 dimer interface [polypeptide binding]; other site 316057008183 allosteric magnesium binding site [ion binding]; other site 316057008184 active site 316057008185 aspartate-rich active site metal binding site; other site 316057008186 Schiff base residues; other site 316057008187 acyl-CoA synthetase; Validated; Region: PRK06188 316057008188 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057008189 acyl-activating enzyme (AAE) consensus motif; other site 316057008190 putative AMP binding site [chemical binding]; other site 316057008191 putative active site [active] 316057008192 putative CoA binding site [chemical binding]; other site 316057008193 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316057008194 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057008195 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 316057008196 putative C-terminal domain interface [polypeptide binding]; other site 316057008197 putative GSH binding site (G-site) [chemical binding]; other site 316057008198 putative dimer interface [polypeptide binding]; other site 316057008199 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 316057008200 putative N-terminal domain interface [polypeptide binding]; other site 316057008201 putative dimer interface [polypeptide binding]; other site 316057008202 putative substrate binding pocket (H-site) [chemical binding]; other site 316057008203 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 316057008204 oligomeric interface; other site 316057008205 putative active site [active] 316057008206 homodimer interface [polypeptide binding]; other site 316057008207 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 316057008208 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 316057008209 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 316057008210 dimer interface [polypeptide binding]; other site 316057008211 active site 316057008212 glycine-pyridoxal phosphate binding site [chemical binding]; other site 316057008213 folate binding site [chemical binding]; other site 316057008214 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 316057008215 ATP cone domain; Region: ATP-cone; pfam03477 316057008216 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 316057008217 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 316057008218 catalytic motif [active] 316057008219 Zn binding site [ion binding]; other site 316057008220 RibD C-terminal domain; Region: RibD_C; cl17279 316057008221 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 316057008222 Lumazine binding domain; Region: Lum_binding; pfam00677 316057008223 Lumazine binding domain; Region: Lum_binding; pfam00677 316057008224 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 316057008225 homopentamer interface [polypeptide binding]; other site 316057008226 active site 316057008227 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 316057008228 putative RNA binding site [nucleotide binding]; other site 316057008229 thiamine monophosphate kinase; Provisional; Region: PRK05731 316057008230 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 316057008231 ATP binding site [chemical binding]; other site 316057008232 dimerization interface [polypeptide binding]; other site 316057008233 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 316057008234 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 316057008235 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057008236 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 316057008237 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 316057008238 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057008239 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057008240 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316057008241 Protein export membrane protein; Region: SecD_SecF; cl14618 316057008242 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 316057008243 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 316057008244 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 316057008245 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 316057008246 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 316057008247 putative phosphate acyltransferase; Provisional; Region: PRK05331 316057008248 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 316057008249 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 316057008250 dimer interface [polypeptide binding]; other site 316057008251 active site 316057008252 CoA binding pocket [chemical binding]; other site 316057008253 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 316057008254 IHF dimer interface [polypeptide binding]; other site 316057008255 IHF - DNA interface [nucleotide binding]; other site 316057008256 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 316057008257 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 316057008258 DNA binding residues [nucleotide binding] 316057008259 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316057008260 classical (c) SDRs; Region: SDR_c; cd05233 316057008261 NAD(P) binding site [chemical binding]; other site 316057008262 active site 316057008263 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 316057008264 potassium uptake protein; Region: kup; TIGR00794 316057008265 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 316057008266 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 316057008267 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 316057008268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057008269 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 316057008270 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316057008271 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 316057008272 SLBB domain; Region: SLBB; pfam10531 316057008273 Chain length determinant protein; Region: Wzz; pfam02706 316057008274 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 316057008275 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316057008276 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 316057008277 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316057008278 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 316057008279 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 316057008280 putative active site [active] 316057008281 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 316057008282 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 316057008283 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 316057008284 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 316057008285 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 316057008286 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 316057008287 homodimer interface [polypeptide binding]; other site 316057008288 substrate-cofactor binding pocket; other site 316057008289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057008290 catalytic residue [active] 316057008291 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 316057008292 enoyl-CoA hydratase; Validated; Region: PRK08139 316057008293 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 316057008294 substrate binding site [chemical binding]; other site 316057008295 oxyanion hole (OAH) forming residues; other site 316057008296 trimer interface [polypeptide binding]; other site 316057008297 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 316057008298 CoenzymeA binding site [chemical binding]; other site 316057008299 subunit interaction site [polypeptide binding]; other site 316057008300 PHB binding site; other site 316057008301 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 316057008302 23S rRNA interface [nucleotide binding]; other site 316057008303 L3 interface [polypeptide binding]; other site 316057008304 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 316057008305 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057008306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057008307 metal binding site [ion binding]; metal-binding site 316057008308 active site 316057008309 I-site; other site 316057008310 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 316057008311 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316057008312 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316057008313 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 316057008314 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316057008315 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057008316 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057008317 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316057008318 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 316057008319 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 316057008320 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 316057008321 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 316057008322 TMP-binding site; other site 316057008323 ATP-binding site [chemical binding]; other site 316057008324 DNA polymerase III subunit delta'; Validated; Region: PRK07471 316057008325 DNA polymerase III subunit delta'; Validated; Region: PRK08485 316057008326 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 316057008327 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 316057008328 active site 316057008329 HIGH motif; other site 316057008330 KMSKS motif; other site 316057008331 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 316057008332 tRNA binding surface [nucleotide binding]; other site 316057008333 anticodon binding site; other site 316057008334 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 316057008335 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316057008336 active site 316057008337 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 316057008338 putative hydrolase; Provisional; Region: PRK02113 316057008339 acyl-CoA synthetase; Validated; Region: PRK08162 316057008340 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 316057008341 acyl-activating enzyme (AAE) consensus motif; other site 316057008342 putative active site [active] 316057008343 AMP binding site [chemical binding]; other site 316057008344 putative CoA binding site [chemical binding]; other site 316057008345 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 316057008346 DctM-like transporters; Region: DctM; pfam06808 316057008347 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 316057008348 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316057008349 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 316057008350 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 316057008351 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 316057008352 active site 316057008353 homodimer interface [polypeptide binding]; other site 316057008354 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 316057008355 active site 316057008356 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 316057008357 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 316057008358 TPR motif; other site 316057008359 binding surface 316057008360 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316057008361 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 316057008362 TPR motif; other site 316057008363 binding surface 316057008364 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 316057008365 binding surface 316057008366 TPR motif; other site 316057008367 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 316057008368 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316057008369 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316057008370 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316057008371 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316057008372 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316057008373 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316057008374 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316057008375 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 316057008376 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 316057008377 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 316057008378 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057008379 catalytic residue [active] 316057008380 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316057008381 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316057008382 cyclase homology domain; Region: CHD; cd07302 316057008383 nucleotidyl binding site; other site 316057008384 metal binding site [ion binding]; metal-binding site 316057008385 dimer interface [polypeptide binding]; other site 316057008386 H-NS histone family; Region: Histone_HNS; pfam00816 316057008387 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 316057008388 YtkA-like; Region: YtkA; pfam13115 316057008389 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057008390 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057008391 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316057008392 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 316057008393 Part of AAA domain; Region: AAA_19; pfam13245 316057008394 Family description; Region: UvrD_C_2; pfam13538 316057008395 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 316057008396 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 316057008397 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 316057008398 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 316057008399 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 316057008400 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 316057008401 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 316057008402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316057008403 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316057008404 Beta-lactamase; Region: Beta-lactamase; pfam00144 316057008405 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 316057008406 Ligand Binding Site [chemical binding]; other site 316057008407 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 316057008408 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 316057008409 homodimer interface [polypeptide binding]; other site 316057008410 metal binding site [ion binding]; metal-binding site 316057008411 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 316057008412 homodimer interface [polypeptide binding]; other site 316057008413 active site 316057008414 putative chemical substrate binding site [chemical binding]; other site 316057008415 metal binding site [ion binding]; metal-binding site 316057008416 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316057008417 Domain of unknown function DUF21; Region: DUF21; pfam01595 316057008418 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 316057008419 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 316057008420 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 316057008421 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 316057008422 dimer interface [polypeptide binding]; other site 316057008423 ssDNA binding site [nucleotide binding]; other site 316057008424 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316057008425 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057008426 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 316057008427 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 316057008428 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 316057008429 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 316057008430 Ion transport protein; Region: Ion_trans; pfam00520 316057008431 Ion channel; Region: Ion_trans_2; pfam07885 316057008432 Predicted acetyltransferase [General function prediction only]; Region: COG2388 316057008433 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 316057008434 CoenzymeA binding site [chemical binding]; other site 316057008435 subunit interaction site [polypeptide binding]; other site 316057008436 PHB binding site; other site 316057008437 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 316057008438 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057008439 MarR family; Region: MarR; pfam01047 316057008440 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 316057008441 Predicted integral membrane protein [Function unknown]; Region: COG5473 316057008442 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 316057008443 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 316057008444 Glucose inhibited division protein A; Region: GIDA; pfam01134 316057008445 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 316057008446 substrate binding pocket [chemical binding]; other site 316057008447 substrate-Mg2+ binding site; other site 316057008448 aspartate-rich region 1; other site 316057008449 aspartate-rich region 2; other site 316057008450 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 316057008451 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 316057008452 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316057008453 Protein export membrane protein; Region: SecD_SecF; pfam02355 316057008454 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 316057008455 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316057008456 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 316057008457 Preprotein translocase subunit; Region: YajC; pfam02699 316057008458 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 316057008459 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 316057008460 Walker A motif; other site 316057008461 ATP binding site [chemical binding]; other site 316057008462 Walker B motif; other site 316057008463 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 316057008464 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316057008465 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316057008466 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316057008467 Peptidase family M23; Region: Peptidase_M23; pfam01551 316057008468 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 316057008469 Methyltransferase domain; Region: Methyltransf_18; pfam12847 316057008470 S-adenosylmethionine binding site [chemical binding]; other site 316057008471 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057008472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057008473 active site 316057008474 phosphorylation site [posttranslational modification] 316057008475 intermolecular recognition site; other site 316057008476 dimerization interface [polypeptide binding]; other site 316057008477 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 316057008478 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 316057008479 seryl-tRNA synthetase; Provisional; Region: PRK05431 316057008480 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 316057008481 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 316057008482 dimer interface [polypeptide binding]; other site 316057008483 active site 316057008484 motif 1; other site 316057008485 motif 2; other site 316057008486 motif 3; other site 316057008487 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 316057008488 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 316057008489 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 316057008490 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 316057008491 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 316057008492 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 316057008493 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 316057008494 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 316057008495 Sporulation related domain; Region: SPOR; pfam05036 316057008496 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 316057008497 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 316057008498 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 316057008499 active site 316057008500 HIGH motif; other site 316057008501 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316057008502 KMSK motif region; other site 316057008503 tRNA binding surface [nucleotide binding]; other site 316057008504 DALR anticodon binding domain; Region: DALR_1; smart00836 316057008505 anticodon binding site; other site 316057008506 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 316057008507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316057008508 Zn2+ binding site [ion binding]; other site 316057008509 Mg2+ binding site [ion binding]; other site 316057008510 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 316057008511 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316057008512 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 316057008513 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316057008514 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 316057008515 non-specific DNA binding site [nucleotide binding]; other site 316057008516 salt bridge; other site 316057008517 sequence-specific DNA binding site [nucleotide binding]; other site 316057008518 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 316057008519 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057008520 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057008521 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057008522 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 316057008523 putative catalytic site [active] 316057008524 putative phosphate binding site [ion binding]; other site 316057008525 active site 316057008526 metal binding site A [ion binding]; metal-binding site 316057008527 DNA binding site [nucleotide binding] 316057008528 putative AP binding site [nucleotide binding]; other site 316057008529 putative metal binding site B [ion binding]; other site 316057008530 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316057008531 Sel1-like repeats; Region: SEL1; smart00671 316057008532 Sel1-like repeats; Region: SEL1; smart00671 316057008533 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 316057008534 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 316057008535 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 316057008536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057008537 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316057008538 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316057008539 putative active site [active] 316057008540 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 316057008541 E3 interaction surface; other site 316057008542 lipoyl attachment site [posttranslational modification]; other site 316057008543 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 316057008544 e3 binding domain; Region: E3_binding; pfam02817 316057008545 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316057008546 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 316057008547 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 316057008548 E3 interaction surface; other site 316057008549 lipoyl attachment site [posttranslational modification]; other site 316057008550 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 316057008551 alpha subunit interface [polypeptide binding]; other site 316057008552 TPP binding site [chemical binding]; other site 316057008553 heterodimer interface [polypeptide binding]; other site 316057008554 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316057008555 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 316057008556 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 316057008557 tetramer interface [polypeptide binding]; other site 316057008558 TPP-binding site [chemical binding]; other site 316057008559 heterodimer interface [polypeptide binding]; other site 316057008560 phosphorylation loop region [posttranslational modification] 316057008561 Septum formation initiator; Region: DivIC; pfam04977 316057008562 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316057008563 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 316057008564 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316057008565 NADP binding site [chemical binding]; other site 316057008566 dimer interface [polypeptide binding]; other site 316057008567 enolase; Provisional; Region: eno; PRK00077 316057008568 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 316057008569 dimer interface [polypeptide binding]; other site 316057008570 metal binding site [ion binding]; metal-binding site 316057008571 substrate binding pocket [chemical binding]; other site 316057008572 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 316057008573 hypothetical protein; Provisional; Region: PRK12472 316057008574 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057008575 hypothetical protein; Provisional; Region: PRK12472 316057008576 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316057008577 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 316057008578 putative substrate translocation pore; other site 316057008579 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316057008580 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 316057008581 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316057008582 PAAR motif; Region: PAAR_motif; pfam05488 316057008583 CTP synthetase; Validated; Region: pyrG; PRK05380 316057008584 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 316057008585 Catalytic site [active] 316057008586 active site 316057008587 UTP binding site [chemical binding]; other site 316057008588 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 316057008589 active site 316057008590 putative oxyanion hole; other site 316057008591 catalytic triad [active] 316057008592 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 316057008593 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 316057008594 triosephosphate isomerase; Provisional; Region: PRK14565 316057008595 substrate binding site [chemical binding]; other site 316057008596 dimer interface [polypeptide binding]; other site 316057008597 catalytic triad [active] 316057008598 periplasmic folding chaperone; Provisional; Region: PRK10788 316057008599 SurA N-terminal domain; Region: SurA_N_3; cl07813 316057008600 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 316057008601 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 316057008602 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316057008603 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316057008604 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 316057008605 active site 316057008606 ribulose/triose binding site [chemical binding]; other site 316057008607 phosphate binding site [ion binding]; other site 316057008608 substrate (anthranilate) binding pocket [chemical binding]; other site 316057008609 product (indole) binding pocket [chemical binding]; other site 316057008610 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 316057008611 trimer interface [polypeptide binding]; other site 316057008612 dimer interface [polypeptide binding]; other site 316057008613 putative active site [active] 316057008614 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 316057008615 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 316057008616 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057008617 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316057008618 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 316057008619 PilZ domain; Region: PilZ; pfam07238 316057008620 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 316057008621 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 316057008622 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057008623 ligand binding site [chemical binding]; other site 316057008624 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 316057008625 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 316057008626 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 316057008627 active site 316057008628 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 316057008629 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 316057008630 dimer interface [polypeptide binding]; other site 316057008631 putative functional site; other site 316057008632 putative MPT binding site; other site 316057008633 LexA repressor; Validated; Region: PRK00215 316057008634 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 316057008635 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 316057008636 Catalytic site [active] 316057008637 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 316057008638 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 316057008639 Competence protein; Region: Competence; pfam03772 316057008640 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 316057008641 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316057008642 active site 316057008643 HIGH motif; other site 316057008644 nucleotide binding site [chemical binding]; other site 316057008645 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 316057008646 KMSKS motif; other site 316057008647 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 316057008648 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 316057008649 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316057008650 HIGH motif; other site 316057008651 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316057008652 active site 316057008653 KMSKS motif; other site 316057008654 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 316057008655 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 316057008656 dimer interface [polypeptide binding]; other site 316057008657 active site 316057008658 citrylCoA binding site [chemical binding]; other site 316057008659 NADH binding [chemical binding]; other site 316057008660 cationic pore residues; other site 316057008661 oxalacetate/citrate binding site [chemical binding]; other site 316057008662 coenzyme A binding site [chemical binding]; other site 316057008663 catalytic triad [active] 316057008664 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 316057008665 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 316057008666 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 316057008667 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 316057008668 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 316057008669 active site 316057008670 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 316057008671 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 316057008672 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 316057008673 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 316057008674 trimer interface [polypeptide binding]; other site 316057008675 active site 316057008676 UDP-GlcNAc binding site [chemical binding]; other site 316057008677 lipid binding site [chemical binding]; lipid-binding site 316057008678 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 316057008679 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316057008680 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316057008681 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316057008682 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316057008683 Surface antigen; Region: Bac_surface_Ag; pfam01103 316057008684 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 316057008685 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 316057008686 active site 316057008687 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 316057008688 protein binding site [polypeptide binding]; other site 316057008689 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 316057008690 putative substrate binding region [chemical binding]; other site 316057008691 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 316057008692 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 316057008693 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 316057008694 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 316057008695 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 316057008696 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 316057008697 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 316057008698 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 316057008699 catalytic residue [active] 316057008700 putative FPP diphosphate binding site; other site 316057008701 putative FPP binding hydrophobic cleft; other site 316057008702 dimer interface [polypeptide binding]; other site 316057008703 putative IPP diphosphate binding site; other site 316057008704 ribosome recycling factor; Reviewed; Region: frr; PRK00083 316057008705 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 316057008706 hinge region; other site 316057008707 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 316057008708 putative nucleotide binding site [chemical binding]; other site 316057008709 uridine monophosphate binding site [chemical binding]; other site 316057008710 homohexameric interface [polypeptide binding]; other site 316057008711 elongation factor Ts; Provisional; Region: tsf; PRK09377 316057008712 UBA/TS-N domain; Region: UBA; pfam00627 316057008713 Elongation factor TS; Region: EF_TS; pfam00889 316057008714 Elongation factor TS; Region: EF_TS; pfam00889 316057008715 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 316057008716 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 316057008717 rRNA interaction site [nucleotide binding]; other site 316057008718 S8 interaction site; other site 316057008719 putative laminin-1 binding site; other site 316057008720 Uncharacterized conserved protein [Function unknown]; Region: COG3743 316057008721 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 316057008722 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 316057008723 putative active site [active] 316057008724 putative PHP Thumb interface [polypeptide binding]; other site 316057008725 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 316057008726 generic binding surface I; other site 316057008727 generic binding surface II; other site 316057008728 Radical SAM superfamily; Region: Radical_SAM; pfam04055 316057008729 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 316057008730 FeS/SAM binding site; other site 316057008731 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057008732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057008733 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316057008734 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316057008735 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316057008736 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316057008737 Walker A/P-loop; other site 316057008738 ATP binding site [chemical binding]; other site 316057008739 Q-loop/lid; other site 316057008740 ABC transporter signature motif; other site 316057008741 Walker B; other site 316057008742 D-loop; other site 316057008743 H-loop/switch region; other site 316057008744 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 316057008745 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316057008746 FtsX-like permease family; Region: FtsX; pfam02687 316057008747 prolyl-tRNA synthetase; Provisional; Region: PRK12325 316057008748 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 316057008749 dimer interface [polypeptide binding]; other site 316057008750 motif 1; other site 316057008751 active site 316057008752 motif 2; other site 316057008753 motif 3; other site 316057008754 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 316057008755 anticodon binding site; other site 316057008756 Protein of unknown function (DUF461); Region: DUF461; pfam04314 316057008757 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 316057008758 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057008759 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 316057008760 dimer interface [polypeptide binding]; other site 316057008761 substrate binding site [chemical binding]; other site 316057008762 metal binding site [ion binding]; metal-binding site 316057008763 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 316057008764 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057008765 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 316057008766 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 316057008767 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 316057008768 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 316057008769 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 316057008770 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057008771 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 316057008772 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057008773 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 316057008774 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 316057008775 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057008776 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 316057008777 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 316057008778 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 316057008779 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 316057008780 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 316057008781 4Fe-4S binding domain; Region: Fer4; pfam00037 316057008782 4Fe-4S binding domain; Region: Fer4; pfam00037 316057008783 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 316057008784 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316057008785 NADH dehydrogenase subunit G; Validated; Region: PRK09130 316057008786 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 316057008787 catalytic loop [active] 316057008788 iron binding site [ion binding]; other site 316057008789 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316057008790 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 316057008791 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 316057008792 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 316057008793 SLBB domain; Region: SLBB; pfam10531 316057008794 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 316057008795 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 316057008796 NADH dehydrogenase subunit E; Validated; Region: PRK07539 316057008797 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 316057008798 putative dimer interface [polypeptide binding]; other site 316057008799 [2Fe-2S] cluster binding site [ion binding]; other site 316057008800 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 316057008801 NADH dehydrogenase subunit D; Validated; Region: PRK06075 316057008802 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 316057008803 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 316057008804 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 316057008805 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 316057008806 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 316057008807 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 316057008808 IHF - DNA interface [nucleotide binding]; other site 316057008809 IHF dimer interface [polypeptide binding]; other site 316057008810 peptidase T; Region: peptidase-T; TIGR01882 316057008811 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 316057008812 metal binding site [ion binding]; metal-binding site 316057008813 dimer interface [polypeptide binding]; other site 316057008814 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 316057008815 Found in ATP-dependent protease La (LON); Region: LON; smart00464 316057008816 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 316057008817 Walker A motif; other site 316057008818 ATP binding site [chemical binding]; other site 316057008819 Walker B motif; other site 316057008820 arginine finger; other site 316057008821 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 316057008822 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 316057008823 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 316057008824 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 316057008825 Walker A motif; other site 316057008826 ATP binding site [chemical binding]; other site 316057008827 Walker B motif; other site 316057008828 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316057008829 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 316057008830 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 316057008831 oligomer interface [polypeptide binding]; other site 316057008832 active site residues [active] 316057008833 trigger factor; Provisional; Region: tig; PRK01490 316057008834 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316057008835 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 316057008836 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 316057008837 Multicopper oxidase; Region: Cu-oxidase; pfam00394 316057008838 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 316057008839 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316057008840 Glutamine amidotransferase class-I; Region: GATase; pfam00117 316057008841 glutamine binding [chemical binding]; other site 316057008842 catalytic triad [active] 316057008843 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 316057008844 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 316057008845 chorismate binding enzyme; Region: Chorismate_bind; cl10555 316057008846 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316057008847 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 316057008848 homodimer interface [polypeptide binding]; other site 316057008849 substrate-cofactor binding pocket; other site 316057008850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057008851 catalytic residue [active] 316057008852 Uncharacterized conserved protein [Function unknown]; Region: COG0062 316057008853 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 316057008854 putative substrate binding site [chemical binding]; other site 316057008855 putative ATP binding site [chemical binding]; other site 316057008856 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 316057008857 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316057008858 glutamine synthetase; Provisional; Region: glnA; PRK09469 316057008859 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316057008860 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316057008861 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057008862 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 316057008863 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316057008864 Amidase; Region: Amidase; cl11426 316057008865 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316057008866 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 316057008867 ligand binding site [chemical binding]; other site 316057008868 NAD binding site [chemical binding]; other site 316057008869 dimerization interface [polypeptide binding]; other site 316057008870 catalytic site [active] 316057008871 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316057008872 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316057008873 Walker A/P-loop; other site 316057008874 ATP binding site [chemical binding]; other site 316057008875 Q-loop/lid; other site 316057008876 ABC transporter signature motif; other site 316057008877 Walker B; other site 316057008878 D-loop; other site 316057008879 H-loop/switch region; other site 316057008880 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316057008881 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 316057008882 dimer interface [polypeptide binding]; other site 316057008883 conserved gate region; other site 316057008884 putative PBP binding loops; other site 316057008885 ABC-ATPase subunit interface; other site 316057008886 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 316057008887 dimer interface [polypeptide binding]; other site 316057008888 conserved gate region; other site 316057008889 putative PBP binding loops; other site 316057008890 ABC-ATPase subunit interface; other site 316057008891 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316057008892 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 316057008893 EamA-like transporter family; Region: EamA; pfam00892 316057008894 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316057008895 EamA-like transporter family; Region: EamA; pfam00892 316057008896 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 316057008897 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 316057008898 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 316057008899 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 316057008900 active site 316057008901 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 316057008902 TSCPD domain; Region: TSCPD; pfam12637 316057008903 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 316057008904 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 316057008905 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316057008906 NAD binding site [chemical binding]; other site 316057008907 active site 316057008908 cobyric acid synthase; Provisional; Region: PRK00784 316057008909 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 316057008910 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 316057008911 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 316057008912 catalytic triad [active] 316057008913 Cysteine-rich small domain; Region: zf-like; cl00946 316057008914 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 316057008915 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 316057008916 intersubunit interface [polypeptide binding]; other site 316057008917 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 316057008918 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316057008919 Walker A/P-loop; other site 316057008920 ATP binding site [chemical binding]; other site 316057008921 Q-loop/lid; other site 316057008922 ABC transporter signature motif; other site 316057008923 Walker B; other site 316057008924 D-loop; other site 316057008925 H-loop/switch region; other site 316057008926 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 316057008927 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 316057008928 ABC-ATPase subunit interface; other site 316057008929 dimer interface [polypeptide binding]; other site 316057008930 putative PBP binding regions; other site 316057008931 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057008932 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057008933 metal binding site [ion binding]; metal-binding site 316057008934 active site 316057008935 I-site; other site 316057008936 putative S-transferase; Provisional; Region: PRK11752 316057008937 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 316057008938 C-terminal domain interface [polypeptide binding]; other site 316057008939 GSH binding site (G-site) [chemical binding]; other site 316057008940 dimer interface [polypeptide binding]; other site 316057008941 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 316057008942 dimer interface [polypeptide binding]; other site 316057008943 N-terminal domain interface [polypeptide binding]; other site 316057008944 active site 316057008945 MOSC domain; Region: MOSC; pfam03473 316057008946 Porin subfamily; Region: Porin_2; pfam02530 316057008947 CAAX protease self-immunity; Region: Abi; pfam02517 316057008948 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 316057008949 potassium uptake protein; Region: kup; TIGR00794 316057008950 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316057008951 Sel1-like repeats; Region: SEL1; smart00671 316057008952 Sel1-like repeats; Region: SEL1; smart00671 316057008953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057008954 Coenzyme A binding pocket [chemical binding]; other site 316057008955 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 316057008956 CoenzymeA binding site [chemical binding]; other site 316057008957 subunit interaction site [polypeptide binding]; other site 316057008958 PHB binding site; other site 316057008959 acetylornithine deacetylase; Provisional; Region: PRK06837 316057008960 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 316057008961 metal binding site [ion binding]; metal-binding site 316057008962 dimer interface [polypeptide binding]; other site 316057008963 CreA protein; Region: CreA; pfam05981 316057008964 hypothetical protein; Provisional; Region: PRK06132 316057008965 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057008966 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316057008967 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316057008968 NodB motif; other site 316057008969 active site 316057008970 catalytic site [active] 316057008971 metal binding site [ion binding]; metal-binding site 316057008972 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; cl17426 316057008973 folate binding site [chemical binding]; other site 316057008974 NADP+ binding site [chemical binding]; other site 316057008975 Predicted membrane protein [Function unknown]; Region: COG2259 316057008976 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 316057008977 Malic enzyme, N-terminal domain; Region: malic; pfam00390 316057008978 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 316057008979 putative NAD(P) binding site [chemical binding]; other site 316057008980 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 316057008981 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 316057008982 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 316057008983 dimer interface [polypeptide binding]; other site 316057008984 anticodon binding site; other site 316057008985 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 316057008986 homodimer interface [polypeptide binding]; other site 316057008987 motif 1; other site 316057008988 active site 316057008989 motif 2; other site 316057008990 GAD domain; Region: GAD; pfam02938 316057008991 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 316057008992 active site 316057008993 motif 3; other site 316057008994 hypothetical protein; Validated; Region: PRK00029 316057008995 Uncharacterized conserved protein [Function unknown]; Region: COG0397 316057008996 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 316057008997 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 316057008998 catalytic site [active] 316057008999 putative active site [active] 316057009000 putative substrate binding site [chemical binding]; other site 316057009001 HRDC domain; Region: HRDC; pfam00570 316057009002 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 316057009003 exopolyphosphatase; Region: exo_poly_only; TIGR03706 316057009004 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316057009005 polyphosphate kinase; Provisional; Region: PRK05443 316057009006 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 316057009007 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 316057009008 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 316057009009 putative domain interface [polypeptide binding]; other site 316057009010 putative active site [active] 316057009011 catalytic site [active] 316057009012 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 316057009013 putative domain interface [polypeptide binding]; other site 316057009014 putative active site [active] 316057009015 catalytic site [active] 316057009016 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 316057009017 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 316057009018 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 316057009019 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 316057009020 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 316057009021 dimerization interface [polypeptide binding]; other site 316057009022 putative ATP binding site [chemical binding]; other site 316057009023 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 316057009024 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 316057009025 active site 316057009026 substrate binding site [chemical binding]; other site 316057009027 cosubstrate binding site; other site 316057009028 catalytic site [active] 316057009029 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 316057009030 DNA-binding site [nucleotide binding]; DNA binding site 316057009031 RNA-binding motif; other site 316057009032 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057009033 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 316057009034 ligand binding site [chemical binding]; other site 316057009035 flexible hinge region; other site 316057009036 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057009037 Integral membrane protein TerC family; Region: TerC; cl10468 316057009038 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 316057009039 active site 316057009040 multimer interface [polypeptide binding]; other site 316057009041 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 316057009042 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057009043 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057009044 ABC transporter; Region: ABC_tran_2; pfam12848 316057009045 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057009046 DNA polymerase III subunit chi; Validated; Region: PRK05728 316057009047 multifunctional aminopeptidase A; Provisional; Region: PRK00913 316057009048 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 316057009049 interface (dimer of trimers) [polypeptide binding]; other site 316057009050 Substrate-binding/catalytic site; other site 316057009051 Zn-binding sites [ion binding]; other site 316057009052 Predicted permeases [General function prediction only]; Region: COG0795 316057009053 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 316057009054 Predicted permeases [General function prediction only]; Region: COG0795 316057009055 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 316057009056 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 316057009057 Organic solvent tolerance protein; Region: OstA_C; pfam04453 316057009058 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 316057009059 SurA N-terminal domain; Region: SurA_N; pfam09312 316057009060 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 316057009061 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 316057009062 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 316057009063 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 316057009064 S-adenosylmethionine binding site [chemical binding]; other site 316057009065 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316057009066 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 316057009067 putative NAD(P) binding site [chemical binding]; other site 316057009068 catalytic Zn binding site [ion binding]; other site 316057009069 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 316057009070 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 316057009071 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 316057009072 catalytic site [active] 316057009073 G-X2-G-X-G-K; other site 316057009074 hypothetical protein; Provisional; Region: PRK11820 316057009075 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 316057009076 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 316057009077 YceG-like family; Region: YceG; pfam02618 316057009078 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 316057009079 dimerization interface [polypeptide binding]; other site 316057009080 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 316057009081 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 316057009082 dimer interface [polypeptide binding]; other site 316057009083 active site 316057009084 acyl carrier protein; Provisional; Region: acpP; PRK00982 316057009085 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 316057009086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057009087 NAD(P) binding site [chemical binding]; other site 316057009088 active site 316057009089 ethanolamine permease; Region: 2A0305; TIGR00908 316057009090 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 316057009091 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 316057009092 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 316057009093 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 316057009094 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 316057009095 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057009096 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057009097 metal binding site [ion binding]; metal-binding site 316057009098 active site 316057009099 I-site; other site 316057009100 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 316057009101 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 316057009102 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 316057009103 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 316057009104 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 316057009105 replicative DNA helicase; Provisional; Region: PRK09165 316057009106 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 316057009107 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 316057009108 Walker A motif; other site 316057009109 ATP binding site [chemical binding]; other site 316057009110 Walker B motif; other site 316057009111 DNA binding loops [nucleotide binding] 316057009112 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 316057009113 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 316057009114 active site 316057009115 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316057009116 dimer interface [polypeptide binding]; other site 316057009117 substrate binding site [chemical binding]; other site 316057009118 catalytic residues [active] 316057009119 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 316057009120 DNA repair protein RadA; Provisional; Region: PRK11823 316057009121 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 316057009122 Walker A motif; other site 316057009123 ATP binding site [chemical binding]; other site 316057009124 Walker B motif; other site 316057009125 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316057009126 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 316057009127 Colicin V production protein; Region: Colicin_V; pfam02674 316057009128 amidophosphoribosyltransferase; Provisional; Region: PRK09123 316057009129 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 316057009130 active site 316057009131 tetramer interface [polypeptide binding]; other site 316057009132 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057009133 active site 316057009134 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316057009135 classical (c) SDRs; Region: SDR_c; cd05233 316057009136 NAD(P) binding site [chemical binding]; other site 316057009137 active site 316057009138 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057009139 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057009140 putative ligand binding site [chemical binding]; other site 316057009141 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057009142 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 316057009143 Phage Tail Collar Domain; Region: Collar; pfam07484 316057009144 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 316057009145 ig-like, plexins, transcription factors; Region: IPT; smart00429 316057009146 IPT/TIG domain; Region: TIG; pfam01833 316057009147 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057009148 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 316057009149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057009150 putative substrate translocation pore; other site 316057009151 GTP-binding protein Der; Reviewed; Region: PRK00093 316057009152 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 316057009153 G1 box; other site 316057009154 GTP/Mg2+ binding site [chemical binding]; other site 316057009155 Switch I region; other site 316057009156 G2 box; other site 316057009157 Switch II region; other site 316057009158 G3 box; other site 316057009159 G4 box; other site 316057009160 G5 box; other site 316057009161 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 316057009162 G1 box; other site 316057009163 GTP/Mg2+ binding site [chemical binding]; other site 316057009164 Switch I region; other site 316057009165 G2 box; other site 316057009166 G3 box; other site 316057009167 Switch II region; other site 316057009168 G4 box; other site 316057009169 G5 box; other site 316057009170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 316057009171 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 316057009172 oligomerization interface [polypeptide binding]; other site 316057009173 active site 316057009174 metal binding site [ion binding]; metal-binding site 316057009175 NnrU protein; Region: NnrU; pfam07298 316057009176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 316057009177 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 316057009178 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316057009179 Sel1 repeat; Region: Sel1; cl02723 316057009180 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 316057009181 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 316057009182 GatB domain; Region: GatB_Yqey; smart00845 316057009183 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 316057009184 PAS fold; Region: PAS_4; pfam08448 316057009185 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316057009186 Histidine kinase; Region: HisKA_2; pfam07568 316057009187 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 316057009188 ATP binding site [chemical binding]; other site 316057009189 Mg2+ binding site [ion binding]; other site 316057009190 G-X-G motif; other site 316057009191 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316057009192 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 316057009193 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 316057009194 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316057009195 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 316057009196 FMN binding site [chemical binding]; other site 316057009197 substrate binding site [chemical binding]; other site 316057009198 putative catalytic residue [active] 316057009199 Putative cyclase; Region: Cyclase; pfam04199 316057009200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057009201 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057009202 myosin-cross-reactive antigen; Provisional; Region: PRK13977 316057009203 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 316057009204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 316057009205 SEC-C motif; Region: SEC-C; pfam02810 316057009206 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057009207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057009208 active site 316057009209 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 316057009210 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 316057009211 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 316057009212 dimer interface [polypeptide binding]; other site 316057009213 PYR/PP interface [polypeptide binding]; other site 316057009214 TPP binding site [chemical binding]; other site 316057009215 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316057009216 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 316057009217 TPP-binding site [chemical binding]; other site 316057009218 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 316057009219 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316057009220 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316057009221 dihydroorotase; Validated; Region: PRK09059 316057009222 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 316057009223 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 316057009224 active site 316057009225 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 316057009226 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 316057009227 DNA protecting protein DprA; Region: dprA; TIGR00732 316057009228 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 316057009229 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 316057009230 active site 316057009231 interdomain interaction site; other site 316057009232 putative metal-binding site [ion binding]; other site 316057009233 nucleotide binding site [chemical binding]; other site 316057009234 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 316057009235 domain I; other site 316057009236 DNA binding groove [nucleotide binding] 316057009237 phosphate binding site [ion binding]; other site 316057009238 domain II; other site 316057009239 domain III; other site 316057009240 nucleotide binding site [chemical binding]; other site 316057009241 catalytic site [active] 316057009242 domain IV; other site 316057009243 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316057009244 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 316057009245 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 316057009246 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 316057009247 ribonuclease R; Region: RNase_R; TIGR02063 316057009248 RNB domain; Region: RNB; pfam00773 316057009249 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 316057009250 RNA binding site [nucleotide binding]; other site 316057009251 hypothetical protein; Provisional; Region: PRK05978 316057009252 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 316057009253 response regulator PleD; Reviewed; Region: pleD; PRK09581 316057009254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057009255 active site 316057009256 phosphorylation site [posttranslational modification] 316057009257 intermolecular recognition site; other site 316057009258 dimerization interface [polypeptide binding]; other site 316057009259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057009260 active site 316057009261 phosphorylation site [posttranslational modification] 316057009262 intermolecular recognition site; other site 316057009263 dimerization interface [polypeptide binding]; other site 316057009264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057009265 metal binding site [ion binding]; metal-binding site 316057009266 active site 316057009267 I-site; other site 316057009268 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057009269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057009270 active site 316057009271 phosphorylation site [posttranslational modification] 316057009272 intermolecular recognition site; other site 316057009273 dimerization interface [polypeptide binding]; other site 316057009274 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 316057009275 DNA polymerase IV; Provisional; Region: PRK02794 316057009276 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 316057009277 active site 316057009278 DNA binding site [nucleotide binding] 316057009279 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 316057009280 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 316057009281 homotrimer interaction site [polypeptide binding]; other site 316057009282 putative active site [active] 316057009283 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 316057009284 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 316057009285 putative active site [active] 316057009286 catalytic site [active] 316057009287 putative metal binding site [ion binding]; other site 316057009288 Protein of unknown function, DUF482; Region: DUF482; pfam04339 316057009289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 316057009290 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 316057009291 HIT family signature motif; other site 316057009292 catalytic residue [active] 316057009293 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 316057009294 homodimer interaction site [polypeptide binding]; other site 316057009295 cofactor binding site; other site 316057009296 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 316057009297 AzlC protein; Region: AzlC; pfam03591 316057009298 PilZ domain; Region: PilZ; pfam07238 316057009299 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 316057009300 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 316057009301 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057009302 catalytic residue [active] 316057009303 Sporulation related domain; Region: SPOR; pfam05036 316057009304 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 316057009305 PilZ domain; Region: PilZ; pfam07238 316057009306 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316057009307 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 316057009308 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 316057009309 Walker A motif; other site 316057009310 ATP binding site [chemical binding]; other site 316057009311 Walker B motif; other site 316057009312 arginine finger; other site 316057009313 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 316057009314 Walker A motif; other site 316057009315 ATP binding site [chemical binding]; other site 316057009316 Walker B motif; other site 316057009317 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316057009318 Uncharacterized conserved protein [Function unknown]; Region: COG2127 316057009319 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316057009320 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 316057009321 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 316057009322 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 316057009323 metal ion-dependent adhesion site (MIDAS); other site 316057009324 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316057009325 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316057009326 Sporulation related domain; Region: SPOR; pfam05036 316057009327 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 316057009328 HSP70 interaction site [polypeptide binding]; other site 316057009329 von Willebrand factor type A domain; Region: VWA_2; pfam13519 316057009330 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316057009331 ATPase MipZ; Region: MipZ; pfam09140 316057009332 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 316057009333 P-loop; other site 316057009334 Magnesium ion binding site [ion binding]; other site 316057009335 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 316057009336 Magnesium ion binding site [ion binding]; other site 316057009337 pantoate--beta-alanine ligase; Region: panC; TIGR00018 316057009338 Pantoate-beta-alanine ligase; Region: PanC; cd00560 316057009339 active site 316057009340 ATP-binding site [chemical binding]; other site 316057009341 pantoate-binding site; other site 316057009342 HXXH motif; other site 316057009343 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 316057009344 EF-hand domain pair; Region: EF_hand_5; pfam13499 316057009345 Ca2+ binding site [ion binding]; other site 316057009346 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316057009347 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 316057009348 N-terminal plug; other site 316057009349 ligand-binding site [chemical binding]; other site 316057009350 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057009351 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 316057009352 ligand binding site [chemical binding]; other site 316057009353 flexible hinge region; other site 316057009354 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 316057009355 putative switch regulator; other site 316057009356 non-specific DNA interactions [nucleotide binding]; other site 316057009357 DNA binding site [nucleotide binding] 316057009358 sequence specific DNA binding site [nucleotide binding]; other site 316057009359 putative cAMP binding site [chemical binding]; other site 316057009360 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 316057009361 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 316057009362 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057009363 putative C-terminal domain interface [polypeptide binding]; other site 316057009364 putative GSH binding site (G-site) [chemical binding]; other site 316057009365 putative dimer interface [polypeptide binding]; other site 316057009366 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 316057009367 putative substrate binding pocket (H-site) [chemical binding]; other site 316057009368 putative N-terminal domain interface [polypeptide binding]; other site 316057009369 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 316057009370 Uncharacterized conserved protein [Function unknown]; Region: COG1434 316057009371 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 316057009372 putative active site [active] 316057009373 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 316057009374 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316057009375 active site 316057009376 catalytic tetrad [active] 316057009377 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 316057009378 non-specific DNA binding site [nucleotide binding]; other site 316057009379 salt bridge; other site 316057009380 sequence-specific DNA binding site [nucleotide binding]; other site 316057009381 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 316057009382 MgtE intracellular N domain; Region: MgtE_N; smart00924 316057009383 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 316057009384 Divalent cation transporter; Region: MgtE; cl00786 316057009385 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316057009386 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316057009387 NodB motif; other site 316057009388 active site 316057009389 catalytic site [active] 316057009390 metal binding site [ion binding]; metal-binding site 316057009391 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316057009392 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316057009393 NodB motif; other site 316057009394 active site 316057009395 catalytic site [active] 316057009396 metal binding site [ion binding]; metal-binding site 316057009397 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 316057009398 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 316057009399 oligomeric interface; other site 316057009400 putative active site [active] 316057009401 homodimer interface [polypeptide binding]; other site 316057009402 hypothetical protein; Validated; Region: PRK06033 316057009403 lipoate-protein ligase B; Provisional; Region: PRK14341 316057009404 hypothetical protein; Provisional; Region: PRK02237 316057009405 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057009406 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 316057009407 Cation efflux family; Region: Cation_efflux; cl00316 316057009408 PAS fold; Region: PAS_4; pfam08448 316057009409 PAS domain S-box; Region: sensory_box; TIGR00229 316057009410 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 316057009411 PAS fold; Region: PAS_3; pfam08447 316057009412 putative active site [active] 316057009413 heme pocket [chemical binding]; other site 316057009414 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 316057009415 dimer interface [polypeptide binding]; other site 316057009416 phosphorylation site [posttranslational modification] 316057009417 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 316057009418 ATP binding site [chemical binding]; other site 316057009419 Mg2+ binding site [ion binding]; other site 316057009420 G-X-G motif; other site 316057009421 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057009422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057009423 active site 316057009424 phosphorylation site [posttranslational modification] 316057009425 intermolecular recognition site; other site 316057009426 dimerization interface [polypeptide binding]; other site 316057009427 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316057009428 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316057009429 MarR family; Region: MarR_2; pfam12802 316057009430 acylphosphatase; Provisional; Region: PRK14421 316057009431 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 316057009432 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 316057009433 tetramer interface [polypeptide binding]; other site 316057009434 active site 316057009435 Mg2+/Mn2+ binding site [ion binding]; other site 316057009436 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316057009437 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316057009438 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316057009439 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316057009440 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 316057009441 carboxyltransferase (CT) interaction site; other site 316057009442 biotinylation site [posttranslational modification]; other site 316057009443 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 316057009444 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 316057009445 DNA photolyase; Region: DNA_photolyase; pfam00875 316057009446 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057009447 EamA-like transporter family; Region: EamA; pfam00892 316057009448 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 316057009449 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316057009450 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316057009451 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 316057009452 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 316057009453 active site 316057009454 acyl-activating enzyme (AAE) consensus motif; other site 316057009455 putative CoA binding site [chemical binding]; other site 316057009456 AMP binding site [chemical binding]; other site 316057009457 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 316057009458 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 316057009459 NAD binding site [chemical binding]; other site 316057009460 homodimer interface [polypeptide binding]; other site 316057009461 homotetramer interface [polypeptide binding]; other site 316057009462 active site 316057009463 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 316057009464 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 316057009465 dimer interface [polypeptide binding]; other site 316057009466 active site 316057009467 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057009468 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057009469 active site 316057009470 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 316057009471 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057009472 dimer interface [polypeptide binding]; other site 316057009473 putative CheW interface [polypeptide binding]; other site 316057009474 PAS domain S-box; Region: sensory_box; TIGR00229 316057009475 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 316057009476 putative active site [active] 316057009477 heme pocket [chemical binding]; other site 316057009478 PAS fold; Region: PAS_4; pfam08448 316057009479 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 316057009480 putative active site [active] 316057009481 heme pocket [chemical binding]; other site 316057009482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057009483 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 316057009484 ATP binding site [chemical binding]; other site 316057009485 Mg2+ binding site [ion binding]; other site 316057009486 G-X-G motif; other site 316057009487 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 316057009488 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 316057009489 Trp docking motif [polypeptide binding]; other site 316057009490 cytochrome domain interface [polypeptide binding]; other site 316057009491 active site 316057009492 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316057009493 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 316057009494 nudix motif; other site 316057009495 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316057009496 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316057009497 inhibitor site; inhibition site 316057009498 active site 316057009499 dimer interface [polypeptide binding]; other site 316057009500 catalytic residue [active] 316057009501 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 316057009502 enoyl-CoA hydratase; Region: PLN02864 316057009503 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 316057009504 dimer interaction site [polypeptide binding]; other site 316057009505 substrate-binding tunnel; other site 316057009506 active site 316057009507 catalytic site [active] 316057009508 substrate binding site [chemical binding]; other site 316057009509 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 316057009510 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 316057009511 DUF35 OB-fold domain; Region: DUF35; pfam01796 316057009512 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 316057009513 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057009514 active site 316057009515 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 316057009516 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316057009517 dimer interface [polypeptide binding]; other site 316057009518 PYR/PP interface [polypeptide binding]; other site 316057009519 TPP binding site [chemical binding]; other site 316057009520 substrate binding site [chemical binding]; other site 316057009521 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 316057009522 TPP-binding site [chemical binding]; other site 316057009523 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316057009524 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 316057009525 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 316057009526 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 316057009527 active site flap/lid [active] 316057009528 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316057009529 nucleophilic elbow; other site 316057009530 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 316057009531 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 316057009532 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316057009533 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 316057009534 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 316057009535 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 316057009536 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 316057009537 ATP12 chaperone protein; Region: ATP12; cl02228 316057009538 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 316057009539 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 316057009540 RNA binding surface [nucleotide binding]; other site 316057009541 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316057009542 active site 316057009543 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 316057009544 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057009545 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057009546 Walker A/P-loop; other site 316057009547 ATP binding site [chemical binding]; other site 316057009548 Q-loop/lid; other site 316057009549 ABC transporter signature motif; other site 316057009550 Walker B; other site 316057009551 D-loop; other site 316057009552 H-loop/switch region; other site 316057009553 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057009554 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057009555 Walker A/P-loop; other site 316057009556 ATP binding site [chemical binding]; other site 316057009557 Q-loop/lid; other site 316057009558 ABC transporter signature motif; other site 316057009559 Walker B; other site 316057009560 D-loop; other site 316057009561 H-loop/switch region; other site 316057009562 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057009563 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057009564 TM-ABC transporter signature motif; other site 316057009565 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057009566 TM-ABC transporter signature motif; other site 316057009567 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057009568 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057009569 putative ligand binding site [chemical binding]; other site 316057009570 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 316057009571 nucleotide binding site/active site [active] 316057009572 HIT family signature motif; other site 316057009573 catalytic residue [active] 316057009574 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 316057009575 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 316057009576 oligomeric interface; other site 316057009577 putative active site [active] 316057009578 homodimer interface [polypeptide binding]; other site 316057009579 multidrug efflux protein; Reviewed; Region: PRK09579 316057009580 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057009581 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057009582 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057009583 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 316057009584 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 316057009585 DNA binding residues [nucleotide binding] 316057009586 dimer interface [polypeptide binding]; other site 316057009587 [2Fe-2S] cluster binding site [ion binding]; other site 316057009588 Predicted transcriptional regulators [Transcription]; Region: COG1733 316057009589 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 316057009590 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 316057009591 Uncharacterized conserved protein [Function unknown]; Region: COG0432 316057009592 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 316057009593 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 316057009594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057009595 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 316057009596 dimerization interface [polypeptide binding]; other site 316057009597 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316057009598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057009599 Walker A/P-loop; other site 316057009600 ATP binding site [chemical binding]; other site 316057009601 Q-loop/lid; other site 316057009602 ABC transporter signature motif; other site 316057009603 Walker B; other site 316057009604 D-loop; other site 316057009605 H-loop/switch region; other site 316057009606 TOBE domain; Region: TOBE_2; pfam08402 316057009607 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 316057009608 dimer interface [polypeptide binding]; other site 316057009609 conserved gate region; other site 316057009610 putative PBP binding loops; other site 316057009611 ABC-ATPase subunit interface; other site 316057009612 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316057009613 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 316057009614 dimer interface [polypeptide binding]; other site 316057009615 conserved gate region; other site 316057009616 putative PBP binding loops; other site 316057009617 ABC-ATPase subunit interface; other site 316057009618 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316057009619 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316057009620 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316057009621 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057009622 active site 316057009623 metal binding site [ion binding]; metal-binding site 316057009624 hexamer interface [polypeptide binding]; other site 316057009625 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 316057009626 TPR motif; other site 316057009627 binding surface 316057009628 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 316057009629 putative FMN binding site [chemical binding]; other site 316057009630 recombination factor protein RarA; Reviewed; Region: PRK13342 316057009631 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 316057009632 Walker A motif; other site 316057009633 ATP binding site [chemical binding]; other site 316057009634 Walker B motif; other site 316057009635 arginine finger; other site 316057009636 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 316057009637 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316057009638 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057009639 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 316057009640 protein binding site [polypeptide binding]; other site 316057009641 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 316057009642 protein binding site [polypeptide binding]; other site 316057009643 Predicted transcriptional regulators [Transcription]; Region: COG1733 316057009644 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 316057009645 dimerization interface [polypeptide binding]; other site 316057009646 putative Zn2+ binding site [ion binding]; other site 316057009647 putative DNA binding site [nucleotide binding]; other site 316057009648 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 316057009649 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 316057009650 putative NAD(P) binding site [chemical binding]; other site 316057009651 dimer interface [polypeptide binding]; other site 316057009652 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 316057009653 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 316057009654 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 316057009655 alphaNTD - beta interaction site [polypeptide binding]; other site 316057009656 alphaNTD homodimer interface [polypeptide binding]; other site 316057009657 alphaNTD - beta' interaction site [polypeptide binding]; other site 316057009658 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 316057009659 30S ribosomal protein S11; Validated; Region: PRK05309 316057009660 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 316057009661 30S ribosomal protein S13; Region: bact_S13; TIGR03631 316057009662 adenylate kinase; Reviewed; Region: adk; PRK00279 316057009663 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 316057009664 AMP-binding site [chemical binding]; other site 316057009665 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 316057009666 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 316057009667 SecY translocase; Region: SecY; pfam00344 316057009668 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 316057009669 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 316057009670 23S rRNA binding site [nucleotide binding]; other site 316057009671 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 316057009672 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 316057009673 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 316057009674 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 316057009675 5S rRNA interface [nucleotide binding]; other site 316057009676 23S rRNA interface [nucleotide binding]; other site 316057009677 L5 interface [polypeptide binding]; other site 316057009678 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 316057009679 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316057009680 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316057009681 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 316057009682 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 316057009683 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 316057009684 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 316057009685 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 316057009686 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 316057009687 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 316057009688 RNA binding site [nucleotide binding]; other site 316057009689 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 316057009690 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 316057009691 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 316057009692 putative translocon interaction site; other site 316057009693 23S rRNA interface [nucleotide binding]; other site 316057009694 signal recognition particle (SRP54) interaction site; other site 316057009695 L23 interface [polypeptide binding]; other site 316057009696 trigger factor interaction site; other site 316057009697 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 316057009698 23S rRNA interface [nucleotide binding]; other site 316057009699 5S rRNA interface [nucleotide binding]; other site 316057009700 putative antibiotic binding site [chemical binding]; other site 316057009701 L25 interface [polypeptide binding]; other site 316057009702 L27 interface [polypeptide binding]; other site 316057009703 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 316057009704 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 316057009705 G-X-X-G motif; other site 316057009706 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 316057009707 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 316057009708 putative translocon binding site; other site 316057009709 protein-rRNA interface [nucleotide binding]; other site 316057009710 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 316057009711 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 316057009712 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 316057009713 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 316057009714 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 316057009715 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 316057009716 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 316057009717 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 316057009718 elongation factor Tu; Reviewed; Region: PRK00049 316057009719 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316057009720 G1 box; other site 316057009721 GEF interaction site [polypeptide binding]; other site 316057009722 GTP/Mg2+ binding site [chemical binding]; other site 316057009723 Switch I region; other site 316057009724 G2 box; other site 316057009725 G3 box; other site 316057009726 Switch II region; other site 316057009727 G4 box; other site 316057009728 G5 box; other site 316057009729 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 316057009730 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 316057009731 Antibiotic Binding Site [chemical binding]; other site 316057009732 elongation factor G; Reviewed; Region: PRK00007 316057009733 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 316057009734 G1 box; other site 316057009735 putative GEF interaction site [polypeptide binding]; other site 316057009736 GTP/Mg2+ binding site [chemical binding]; other site 316057009737 Switch I region; other site 316057009738 G2 box; other site 316057009739 G3 box; other site 316057009740 Switch II region; other site 316057009741 G4 box; other site 316057009742 G5 box; other site 316057009743 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 316057009744 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 316057009745 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 316057009746 30S ribosomal protein S7; Validated; Region: PRK05302 316057009747 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 316057009748 S17 interaction site [polypeptide binding]; other site 316057009749 S8 interaction site; other site 316057009750 16S rRNA interaction site [nucleotide binding]; other site 316057009751 streptomycin interaction site [chemical binding]; other site 316057009752 23S rRNA interaction site [nucleotide binding]; other site 316057009753 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 316057009754 Protein of unknown function (DUF1551); Region: DUF1551; pfam07585 316057009755 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316057009756 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057009757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057009758 Walker A/P-loop; other site 316057009759 ATP binding site [chemical binding]; other site 316057009760 Q-loop/lid; other site 316057009761 ABC transporter signature motif; other site 316057009762 Walker B; other site 316057009763 D-loop; other site 316057009764 H-loop/switch region; other site 316057009765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057009766 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 316057009767 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 316057009768 S-adenosylmethionine binding site [chemical binding]; other site 316057009769 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 316057009770 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 316057009771 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 316057009772 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 316057009773 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 316057009774 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 316057009775 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 316057009776 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 316057009777 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 316057009778 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 316057009779 DNA binding site [nucleotide binding] 316057009780 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 316057009781 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 316057009782 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 316057009783 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 316057009784 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 316057009785 RPB11 interaction site [polypeptide binding]; other site 316057009786 RPB12 interaction site [polypeptide binding]; other site 316057009787 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 316057009788 RPB3 interaction site [polypeptide binding]; other site 316057009789 RPB1 interaction site [polypeptide binding]; other site 316057009790 RPB11 interaction site [polypeptide binding]; other site 316057009791 RPB10 interaction site [polypeptide binding]; other site 316057009792 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 316057009793 L11 interface [polypeptide binding]; other site 316057009794 putative EF-Tu interaction site [polypeptide binding]; other site 316057009795 putative EF-G interaction site [polypeptide binding]; other site 316057009796 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 316057009797 23S rRNA interface [nucleotide binding]; other site 316057009798 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 316057009799 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316057009800 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 316057009801 putative ligand binding site [chemical binding]; other site 316057009802 NAD binding site [chemical binding]; other site 316057009803 catalytic site [active] 316057009804 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 316057009805 mRNA/rRNA interface [nucleotide binding]; other site 316057009806 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 316057009807 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 316057009808 23S rRNA interface [nucleotide binding]; other site 316057009809 L7/L12 interface [polypeptide binding]; other site 316057009810 putative thiostrepton binding site; other site 316057009811 L25 interface [polypeptide binding]; other site 316057009812 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 316057009813 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 316057009814 putative homodimer interface [polypeptide binding]; other site 316057009815 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 316057009816 heterodimer interface [polypeptide binding]; other site 316057009817 homodimer interface [polypeptide binding]; other site 316057009818 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 316057009819 elongation factor Tu; Reviewed; Region: PRK00049 316057009820 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316057009821 G1 box; other site 316057009822 GEF interaction site [polypeptide binding]; other site 316057009823 GTP/Mg2+ binding site [chemical binding]; other site 316057009824 Switch I region; other site 316057009825 G2 box; other site 316057009826 G3 box; other site 316057009827 Switch II region; other site 316057009828 G4 box; other site 316057009829 G5 box; other site 316057009830 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 316057009831 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 316057009832 Antibiotic Binding Site [chemical binding]; other site 316057009833 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316057009834 Beta-lactamase; Region: Beta-lactamase; pfam00144 316057009835 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316057009836 classical (c) SDRs; Region: SDR_c; cd05233 316057009837 NAD(P) binding site [chemical binding]; other site 316057009838 active site 316057009839 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 316057009840 catalytic core [active] 316057009841 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 316057009842 classical (c) SDRs; Region: SDR_c; cd05233 316057009843 NAD(P) binding site [chemical binding]; other site 316057009844 active site 316057009845 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 316057009846 Phosphotransferase enzyme family; Region: APH; pfam01636 316057009847 putative active site [active] 316057009848 putative substrate binding site [chemical binding]; other site 316057009849 ATP binding site [chemical binding]; other site 316057009850 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057009851 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057009852 active site 316057009853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057009854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057009855 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 316057009856 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 316057009857 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 316057009858 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 316057009859 active site 316057009860 catalytic site [active] 316057009861 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057009862 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057009863 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 316057009864 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316057009865 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057009866 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 316057009867 protein binding site [polypeptide binding]; other site 316057009868 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 316057009869 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 316057009870 ATP binding site [chemical binding]; other site 316057009871 Mg++ binding site [ion binding]; other site 316057009872 motif III; other site 316057009873 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 316057009874 nucleotide binding region [chemical binding]; other site 316057009875 ATP-binding site [chemical binding]; other site 316057009876 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 316057009877 RNA binding site [nucleotide binding]; other site 316057009878 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 316057009879 Peptidase family M50; Region: Peptidase_M50; pfam02163 316057009880 active site 316057009881 putative substrate binding region [chemical binding]; other site 316057009882 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 316057009883 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 316057009884 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 316057009885 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057009886 acyl-activating enzyme (AAE) consensus motif; other site 316057009887 AMP binding site [chemical binding]; other site 316057009888 active site 316057009889 CoA binding site [chemical binding]; other site 316057009890 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 316057009891 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 316057009892 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 316057009893 dimer interface [polypeptide binding]; other site 316057009894 conserved gate region; other site 316057009895 ABC-ATPase subunit interface; other site 316057009896 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 316057009897 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 316057009898 Walker A/P-loop; other site 316057009899 ATP binding site [chemical binding]; other site 316057009900 Q-loop/lid; other site 316057009901 ABC transporter signature motif; other site 316057009902 Walker B; other site 316057009903 D-loop; other site 316057009904 H-loop/switch region; other site 316057009905 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 316057009906 serine O-acetyltransferase; Region: cysE; TIGR01172 316057009907 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 316057009908 trimer interface [polypeptide binding]; other site 316057009909 active site 316057009910 substrate binding site [chemical binding]; other site 316057009911 CoA binding site [chemical binding]; other site 316057009912 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 316057009913 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 316057009914 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057009915 catalytic residue [active] 316057009916 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 316057009917 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 316057009918 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316057009919 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057009920 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 316057009921 TPR motif; other site 316057009922 TPR repeat; Region: TPR_11; pfam13414 316057009923 binding surface 316057009924 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 316057009925 Methyltransferase domain; Region: Methyltransf_26; pfam13659 316057009926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057009927 Response regulator receiver domain; Region: Response_reg; pfam00072 316057009928 active site 316057009929 phosphorylation site [posttranslational modification] 316057009930 intermolecular recognition site; other site 316057009931 dimerization interface [polypeptide binding]; other site 316057009932 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 316057009933 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316057009934 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 316057009935 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057009936 catalytic residue [active] 316057009937 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 316057009938 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 316057009939 GTP cyclohydrolase I; Provisional; Region: PLN03044 316057009940 active site 316057009941 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 316057009942 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 316057009943 trimerization site [polypeptide binding]; other site 316057009944 active site 316057009945 Predicted periplasmic protein [Function unknown]; Region: COG3904 316057009946 hypothetical protein; Validated; Region: PRK00041 316057009947 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 316057009948 Sulfatase; Region: Sulfatase; cl17466 316057009949 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057009950 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 316057009951 putative heme binding pocket [chemical binding]; other site 316057009952 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 316057009953 DNA-binding site [nucleotide binding]; DNA binding site 316057009954 RNA-binding motif; other site 316057009955 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 316057009956 putative substrate translocation pore; other site 316057009957 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057009958 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 316057009959 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 316057009960 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 316057009961 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 316057009962 active site 316057009963 dimer interface [polypeptide binding]; other site 316057009964 motif 1; other site 316057009965 motif 2; other site 316057009966 motif 3; other site 316057009967 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 316057009968 anticodon binding site; other site 316057009969 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 316057009970 putative FMN binding site [chemical binding]; other site 316057009971 PAS domain S-box; Region: sensory_box; TIGR00229 316057009972 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 316057009973 putative active site [active] 316057009974 heme pocket [chemical binding]; other site 316057009975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057009976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057009977 metal binding site [ion binding]; metal-binding site 316057009978 active site 316057009979 I-site; other site 316057009980 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 316057009981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316057009982 HWE histidine kinase; Region: HWE_HK; smart00911 316057009983 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 316057009984 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 316057009985 ligand binding site [chemical binding]; other site 316057009986 flexible hinge region; other site 316057009987 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 316057009988 putative switch regulator; other site 316057009989 non-specific DNA interactions [nucleotide binding]; other site 316057009990 DNA binding site [nucleotide binding] 316057009991 sequence specific DNA binding site [nucleotide binding]; other site 316057009992 putative cAMP binding site [chemical binding]; other site 316057009993 hypothetical protein; Provisional; Region: PRK10279 316057009994 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 316057009995 nucleophile elbow; other site 316057009996 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_10; cd04623 316057009997 FOG: CBS domain [General function prediction only]; Region: COG0517 316057009998 Rhomboid family; Region: Rhomboid; cl11446 316057009999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 316057010000 PAS domain; Region: PAS_5; pfam07310 316057010001 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057010002 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 316057010003 ligand binding site [chemical binding]; other site 316057010004 flexible hinge region; other site 316057010005 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057010006 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 316057010007 PAS domain; Region: PAS_9; pfam13426 316057010008 putative active site [active] 316057010009 heme pocket [chemical binding]; other site 316057010010 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 316057010011 PAS domain; Region: PAS_9; pfam13426 316057010012 putative active site [active] 316057010013 heme pocket [chemical binding]; other site 316057010014 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316057010015 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 316057010016 putative active site [active] 316057010017 heme pocket [chemical binding]; other site 316057010018 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 316057010019 dimer interface [polypeptide binding]; other site 316057010020 phosphorylation site [posttranslational modification] 316057010021 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 316057010022 ATP binding site [chemical binding]; other site 316057010023 Mg2+ binding site [ion binding]; other site 316057010024 G-X-G motif; other site 316057010025 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057010026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057010027 active site 316057010028 phosphorylation site [posttranslational modification] 316057010029 intermolecular recognition site; other site 316057010030 dimerization interface [polypeptide binding]; other site 316057010031 PilZ domain; Region: PilZ; pfam07238 316057010032 PilZ domain; Region: PilZ; pfam07238 316057010033 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 316057010034 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316057010035 MarR family; Region: MarR_2; pfam12802 316057010036 Porin subfamily; Region: Porin_2; pfam02530 316057010037 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 316057010038 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 316057010039 trimer interface [polypeptide binding]; other site 316057010040 putative metal binding site [ion binding]; other site 316057010041 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 316057010042 serine acetyltransferase; Provisional; Region: cysE; PRK11132 316057010043 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 316057010044 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 316057010045 trimer interface [polypeptide binding]; other site 316057010046 active site 316057010047 substrate binding site [chemical binding]; other site 316057010048 CoA binding site [chemical binding]; other site 316057010049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057010050 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 316057010051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 316057010052 salicylate hydroxylase; Provisional; Region: PRK08163 316057010053 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316057010054 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 316057010055 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316057010056 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 316057010057 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 316057010058 metal binding site [ion binding]; metal-binding site 316057010059 putative dimer interface [polypeptide binding]; other site 316057010060 amidase; Provisional; Region: PRK07042 316057010061 Amidase; Region: Amidase; cl11426 316057010062 enoyl-CoA hydratase; Provisional; Region: PRK08260 316057010063 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 316057010064 substrate binding site [chemical binding]; other site 316057010065 oxyanion hole (OAH) forming residues; other site 316057010066 trimer interface [polypeptide binding]; other site 316057010067 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 316057010068 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 316057010069 active site 316057010070 acyl-activating enzyme (AAE) consensus motif; other site 316057010071 putative CoA binding site [chemical binding]; other site 316057010072 AMP binding site [chemical binding]; other site 316057010073 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316057010074 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 316057010075 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 316057010076 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 316057010077 substrate binding site [chemical binding]; other site 316057010078 oxyanion hole (OAH) forming residues; other site 316057010079 trimer interface [polypeptide binding]; other site 316057010080 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 316057010081 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057010082 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 316057010083 substrate binding pocket [chemical binding]; other site 316057010084 FAD binding site [chemical binding]; other site 316057010085 catalytic base [active] 316057010086 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 316057010087 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 316057010088 tetrameric interface [polypeptide binding]; other site 316057010089 NAD binding site [chemical binding]; other site 316057010090 catalytic residues [active] 316057010091 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057010092 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057010093 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316057010094 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 316057010095 substrate binding site [chemical binding]; other site 316057010096 oxyanion hole (OAH) forming residues; other site 316057010097 trimer interface [polypeptide binding]; other site 316057010098 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 316057010099 CoenzymeA binding site [chemical binding]; other site 316057010100 subunit interaction site [polypeptide binding]; other site 316057010101 PHB binding site; other site 316057010102 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 316057010103 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 316057010104 dimer interface [polypeptide binding]; other site 316057010105 active site 316057010106 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 316057010107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057010108 putative substrate translocation pore; other site 316057010109 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 316057010110 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316057010111 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316057010112 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316057010113 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 316057010114 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 316057010115 DctM-like transporters; Region: DctM; pfam06808 316057010116 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 316057010117 CoA binding domain; Region: CoA_binding_2; pfam13380 316057010118 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316057010119 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316057010120 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 316057010121 DUF35 OB-fold domain; Region: DUF35; pfam01796 316057010122 thiolase; Provisional; Region: PRK06158 316057010123 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057010124 active site 316057010125 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057010126 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057010127 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 316057010128 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057010129 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057010130 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057010131 acyl-activating enzyme (AAE) consensus motif; other site 316057010132 acyl-activating enzyme (AAE) consensus motif; other site 316057010133 putative AMP binding site [chemical binding]; other site 316057010134 putative active site [active] 316057010135 putative CoA binding site [chemical binding]; other site 316057010136 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 316057010137 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057010138 active site 316057010139 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316057010140 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 316057010141 putative NAD(P) binding site [chemical binding]; other site 316057010142 active site 316057010143 putative substrate binding site [chemical binding]; other site 316057010144 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316057010145 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 316057010146 dimer interface [polypeptide binding]; other site 316057010147 conserved gate region; other site 316057010148 putative PBP binding loops; other site 316057010149 ABC-ATPase subunit interface; other site 316057010150 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316057010151 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 316057010152 dimer interface [polypeptide binding]; other site 316057010153 conserved gate region; other site 316057010154 putative PBP binding loops; other site 316057010155 ABC-ATPase subunit interface; other site 316057010156 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316057010157 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316057010158 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316057010159 Walker A/P-loop; other site 316057010160 ATP binding site [chemical binding]; other site 316057010161 Q-loop/lid; other site 316057010162 ABC transporter signature motif; other site 316057010163 Walker B; other site 316057010164 D-loop; other site 316057010165 H-loop/switch region; other site 316057010166 TOBE domain; Region: TOBE_2; pfam08402 316057010167 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 316057010168 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 316057010169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057010170 NAD(P) binding site [chemical binding]; other site 316057010171 active site 316057010172 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057010173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057010174 NAD(P) binding site [chemical binding]; other site 316057010175 active site 316057010176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057010177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057010178 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057010179 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057010180 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057010181 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316057010182 Protein export membrane protein; Region: SecD_SecF; cl14618 316057010183 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 316057010184 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316057010185 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316057010186 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 316057010187 tonB-system energizer ExbB; Region: exbB; TIGR02797 316057010188 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 316057010189 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 316057010190 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 316057010191 N-terminal plug; other site 316057010192 ligand-binding site [chemical binding]; other site 316057010193 PAS fold; Region: PAS_4; pfam08448 316057010194 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 316057010195 dimer interface [polypeptide binding]; other site 316057010196 phosphorylation site [posttranslational modification] 316057010197 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 316057010198 ATP binding site [chemical binding]; other site 316057010199 Mg2+ binding site [ion binding]; other site 316057010200 G-X-G motif; other site 316057010201 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057010202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057010203 active site 316057010204 phosphorylation site [posttranslational modification] 316057010205 intermolecular recognition site; other site 316057010206 dimerization interface [polypeptide binding]; other site 316057010207 photoactive yellow protein; Region: photo_yellow; TIGR02373 316057010208 OpgC protein; Region: OpgC_C; pfam10129 316057010209 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 316057010210 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 316057010211 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 316057010212 E3 interaction surface; other site 316057010213 lipoyl attachment site [posttranslational modification]; other site 316057010214 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057010215 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316057010216 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 316057010217 Predicted methyltransferases [General function prediction only]; Region: COG1568 316057010218 MarR family; Region: MarR_2; cl17246 316057010219 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 316057010220 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 316057010221 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057010222 Coenzyme A binding pocket [chemical binding]; other site 316057010223 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 316057010224 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316057010225 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316057010226 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 316057010227 protein binding site [polypeptide binding]; other site 316057010228 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 316057010229 protein binding site [polypeptide binding]; other site 316057010230 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 316057010231 FtsH protease regulator HflC; Provisional; Region: PRK11029 316057010232 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 316057010233 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 316057010234 HflK protein; Region: hflK; TIGR01933 316057010235 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 316057010236 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 316057010237 NADP+ binding site [chemical binding]; other site 316057010238 folate binding site [chemical binding]; other site 316057010239 thymidylate synthase; Reviewed; Region: thyA; PRK01827 316057010240 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 316057010241 dimerization interface [polypeptide binding]; other site 316057010242 active site 316057010243 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316057010244 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316057010245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 316057010246 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 316057010247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 316057010248 fumarate hydratase; Reviewed; Region: fumC; PRK00485 316057010249 Class II fumarases; Region: Fumarase_classII; cd01362 316057010250 active site 316057010251 tetramer interface [polypeptide binding]; other site 316057010252 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 316057010253 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 316057010254 AsmA family; Region: AsmA; pfam05170 316057010255 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316057010256 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316057010257 FAD binding domain; Region: FAD_binding_4; pfam01565 316057010258 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 316057010259 active site 316057010260 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 316057010261 Part of AAA domain; Region: AAA_19; pfam13245 316057010262 Family description; Region: UvrD_C_2; pfam13538 316057010263 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 316057010264 ATP binding site [chemical binding]; other site 316057010265 Mg2+ binding site [ion binding]; other site 316057010266 G-X-G motif; other site 316057010267 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 316057010268 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316057010269 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316057010270 Walker A/P-loop; other site 316057010271 ATP binding site [chemical binding]; other site 316057010272 Q-loop/lid; other site 316057010273 ABC transporter signature motif; other site 316057010274 Walker B; other site 316057010275 D-loop; other site 316057010276 H-loop/switch region; other site 316057010277 ABC-2 type transporter; Region: ABC2_membrane; cl17235 316057010278 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316057010279 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057010280 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 316057010281 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 316057010282 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057010283 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 316057010284 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316057010285 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 316057010286 S-adenosylmethionine binding site [chemical binding]; other site 316057010287 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 316057010288 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 316057010289 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 316057010290 active site 316057010291 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 316057010292 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 316057010293 putative substrate translocation pore; other site 316057010294 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 316057010295 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 316057010296 nucleotide binding pocket [chemical binding]; other site 316057010297 K-X-D-G motif; other site 316057010298 catalytic site [active] 316057010299 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 316057010300 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 316057010301 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 316057010302 Dimer interface [polypeptide binding]; other site 316057010303 BRCT sequence motif; other site 316057010304 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 316057010305 GIY-YIG motif/motif A; other site 316057010306 putative active site [active] 316057010307 putative metal binding site [ion binding]; other site 316057010308 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 316057010309 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316057010310 Walker A/P-loop; other site 316057010311 ATP binding site [chemical binding]; other site 316057010312 Q-loop/lid; other site 316057010313 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316057010314 ABC transporter signature motif; other site 316057010315 Walker B; other site 316057010316 D-loop; other site 316057010317 H-loop/switch region; other site 316057010318 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 316057010319 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 316057010320 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 316057010321 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 316057010322 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 316057010323 nucleotide binding site [chemical binding]; other site 316057010324 SulA interaction site; other site 316057010325 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 316057010326 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 316057010327 Cell division protein FtsA; Region: FtsA; smart00842 316057010328 Cell division protein FtsA; Region: FtsA; pfam14450 316057010329 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 316057010330 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 316057010331 Cell division protein FtsQ; Region: FtsQ; pfam03799 316057010332 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 316057010333 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 316057010334 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057010335 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 316057010336 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 316057010337 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 316057010338 FAD binding domain; Region: FAD_binding_4; pfam01565 316057010339 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 316057010340 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 316057010341 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316057010342 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316057010343 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316057010344 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 316057010345 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 316057010346 active site 316057010347 homodimer interface [polypeptide binding]; other site 316057010348 cell division protein FtsW; Region: ftsW; TIGR02614 316057010349 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 316057010350 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316057010351 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316057010352 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 316057010353 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 316057010354 Mg++ binding site [ion binding]; other site 316057010355 putative catalytic motif [active] 316057010356 putative substrate binding site [chemical binding]; other site 316057010357 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 316057010358 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316057010359 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316057010360 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 316057010361 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316057010362 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316057010363 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316057010364 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 316057010365 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 316057010366 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316057010367 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 316057010368 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 316057010369 MraW methylase family; Region: Methyltransf_5; cl17771 316057010370 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 316057010371 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 316057010372 amidase catalytic site [active] 316057010373 Zn binding residues [ion binding]; other site 316057010374 substrate binding site [chemical binding]; other site 316057010375 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057010376 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316057010377 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 316057010378 Walker A/P-loop; other site 316057010379 ATP binding site [chemical binding]; other site 316057010380 Q-loop/lid; other site 316057010381 ABC transporter signature motif; other site 316057010382 Walker B; other site 316057010383 D-loop; other site 316057010384 H-loop/switch region; other site 316057010385 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316057010386 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 316057010387 putative substrate translocation pore; other site 316057010388 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 316057010389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057010390 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057010391 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057010392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057010393 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 316057010394 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 316057010395 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 316057010396 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057010397 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 316057010398 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 316057010399 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057010400 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 316057010401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057010402 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 316057010403 substrate binding pocket [chemical binding]; other site 316057010404 dimerization interface [polypeptide binding]; other site 316057010405 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 316057010406 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 316057010407 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 316057010408 dimerization interface [polypeptide binding]; other site 316057010409 putative DNA binding site [nucleotide binding]; other site 316057010410 putative Zn2+ binding site [ion binding]; other site 316057010411 Predicted permeases [General function prediction only]; Region: COG0701 316057010412 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 316057010413 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 316057010414 Sodium Bile acid symporter family; Region: SBF; cl17470 316057010415 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 316057010416 ArsC family; Region: ArsC; pfam03960 316057010417 catalytic residues [active] 316057010418 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 316057010419 Low molecular weight phosphatase family; Region: LMWPc; cl00105 316057010420 active site 316057010421 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 316057010422 putative DNA binding site [nucleotide binding]; other site 316057010423 putative Zn2+ binding site [ion binding]; other site 316057010424 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 316057010425 dimerization interface [polypeptide binding]; other site 316057010426 putative DNA binding site [nucleotide binding]; other site 316057010427 putative Zn2+ binding site [ion binding]; other site 316057010428 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316057010429 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 316057010430 S-adenosylmethionine binding site [chemical binding]; other site 316057010431 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 316057010432 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 316057010433 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057010434 catalytic residue [active] 316057010435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057010436 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057010437 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 316057010438 PRC-barrel domain; Region: PRC; pfam05239 316057010439 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316057010440 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 316057010441 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 316057010442 thiS-thiF/thiG interaction site; other site 316057010443 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 316057010444 ThiS interaction site; other site 316057010445 putative active site [active] 316057010446 tetramer interface [polypeptide binding]; other site 316057010447 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 316057010448 thiamine phosphate binding site [chemical binding]; other site 316057010449 active site 316057010450 pyrophosphate binding site [ion binding]; other site 316057010451 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 316057010452 ThiC-associated domain; Region: ThiC-associated; pfam13667 316057010453 ThiC family; Region: ThiC; pfam01964 316057010454 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 316057010455 homotrimer interaction site [polypeptide binding]; other site 316057010456 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057010457 Cytochrome P450; Region: p450; cl12078 316057010458 SOUL heme-binding protein; Region: SOUL; pfam04832 316057010459 Predicted membrane protein [Function unknown]; Region: COG4270 316057010460 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 316057010461 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 316057010462 heme binding site [chemical binding]; other site 316057010463 ferroxidase pore; other site 316057010464 ferroxidase diiron center [ion binding]; other site 316057010465 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316057010466 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 316057010467 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057010468 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057010469 hypothetical protein; Provisional; Region: PRK05208 316057010470 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 316057010471 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 316057010472 S-adenosylmethionine binding site [chemical binding]; other site 316057010473 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 316057010474 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057010475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057010476 Walker A/P-loop; other site 316057010477 ATP binding site [chemical binding]; other site 316057010478 Q-loop/lid; other site 316057010479 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057010480 ABC transporter signature motif; other site 316057010481 ABC transporter; Region: ABC_tran_2; pfam12848 316057010482 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316057010483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057010484 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057010485 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 316057010486 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 316057010487 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 316057010488 active site residue [active] 316057010489 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 316057010490 active site residue [active] 316057010491 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 316057010492 active site 316057010493 catalytic residue [active] 316057010494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 316057010495 Cache domain; Region: Cache_1; pfam02743 316057010496 PAS domain S-box; Region: sensory_box; TIGR00229 316057010497 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 316057010498 putative active site [active] 316057010499 heme pocket [chemical binding]; other site 316057010500 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057010501 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057010502 metal binding site [ion binding]; metal-binding site 316057010503 active site 316057010504 I-site; other site 316057010505 Predicted membrane protein [Function unknown]; Region: COG2261 316057010506 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316057010507 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 316057010508 Walker A motif; other site 316057010509 ATP binding site [chemical binding]; other site 316057010510 Walker B motif; other site 316057010511 arginine finger; other site 316057010512 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316057010513 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057010514 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 316057010515 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 316057010516 GIY-YIG motif/motif A; other site 316057010517 putative active site [active] 316057010518 putative metal binding site [ion binding]; other site 316057010519 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 316057010520 Radical SAM superfamily; Region: Radical_SAM; pfam04055 316057010521 FeS/SAM binding site; other site 316057010522 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 316057010523 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 316057010524 catalytic residues [active] 316057010525 dimer interface [polypeptide binding]; other site 316057010526 amidase; Provisional; Region: PRK07487 316057010527 Amidase; Region: Amidase; cl11426 316057010528 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 316057010529 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 316057010530 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 316057010531 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 316057010532 putative active site [active] 316057010533 catalytic residue [active] 316057010534 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 316057010535 active site 316057010536 dimer interface [polypeptide binding]; other site 316057010537 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 316057010538 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 316057010539 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316057010540 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 316057010541 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 316057010542 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 316057010543 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 316057010544 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 316057010545 putative active site [active] 316057010546 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 316057010547 AAA domain; Region: AAA_33; pfam13671 316057010548 ATP-binding site [chemical binding]; other site 316057010549 Gluconate-6-phosphate binding site [chemical binding]; other site 316057010550 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 316057010551 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 316057010552 active site 316057010553 motif I; other site 316057010554 motif II; other site 316057010555 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 316057010556 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 316057010557 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 316057010558 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 316057010559 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 316057010560 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 316057010561 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 316057010562 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 316057010563 active site 316057010564 homodimer interface [polypeptide binding]; other site 316057010565 catalytic site [active] 316057010566 acceptor binding site [chemical binding]; other site 316057010567 trehalose synthase; Region: treS_nterm; TIGR02456 316057010568 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 316057010569 active site 316057010570 catalytic site [active] 316057010571 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 316057010572 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 316057010573 glycogen branching enzyme; Provisional; Region: PRK05402 316057010574 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 316057010575 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 316057010576 active site 316057010577 catalytic site [active] 316057010578 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 316057010579 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 316057010580 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 316057010581 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 316057010582 active site 316057010583 catalytic site [active] 316057010584 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 316057010585 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 316057010586 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 316057010587 catalytic site [active] 316057010588 active site 316057010589 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 316057010590 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 316057010591 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 316057010592 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 316057010593 active site 316057010594 catalytic site [active] 316057010595 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 316057010596 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 316057010597 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 316057010598 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 316057010599 active site 316057010600 DNA binding site [nucleotide binding] 316057010601 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 316057010602 DNA binding site [nucleotide binding] 316057010603 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 316057010604 nucleotide binding site [chemical binding]; other site 316057010605 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 316057010606 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 316057010607 putative DNA binding site [nucleotide binding]; other site 316057010608 putative homodimer interface [polypeptide binding]; other site 316057010609 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 316057010610 CPxP motif; other site 316057010611 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 316057010612 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 316057010613 GTP binding site; other site 316057010614 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 316057010615 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316057010616 putative NAD(P) binding site [chemical binding]; other site 316057010617 catalytic Zn binding site [ion binding]; other site 316057010618 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316057010619 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 316057010620 FMN binding site [chemical binding]; other site 316057010621 substrate binding site [chemical binding]; other site 316057010622 putative catalytic residue [active] 316057010623 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 316057010624 UreF; Region: UreF; pfam01730 316057010625 Uncharacterized conserved protein [Function unknown]; Region: COG1359 316057010626 Uncharacterized conserved protein [Function unknown]; Region: COG1359 316057010627 urease subunit alpha; Reviewed; Region: ureC; PRK13207 316057010628 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 316057010629 subunit interactions [polypeptide binding]; other site 316057010630 active site 316057010631 flap region; other site 316057010632 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 316057010633 putative active site [active] 316057010634 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 316057010635 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 316057010636 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 316057010637 gamma-beta subunit interface [polypeptide binding]; other site 316057010638 alpha-beta subunit interface [polypeptide binding]; other site 316057010639 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 316057010640 alpha-gamma subunit interface [polypeptide binding]; other site 316057010641 beta-gamma subunit interface [polypeptide binding]; other site 316057010642 UreD urease accessory protein; Region: UreD; pfam01774 316057010643 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 316057010644 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057010645 Walker A/P-loop; other site 316057010646 ATP binding site [chemical binding]; other site 316057010647 Q-loop/lid; other site 316057010648 ABC transporter signature motif; other site 316057010649 Walker B; other site 316057010650 D-loop; other site 316057010651 H-loop/switch region; other site 316057010652 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316057010653 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057010654 Walker A/P-loop; other site 316057010655 ATP binding site [chemical binding]; other site 316057010656 Q-loop/lid; other site 316057010657 ABC transporter signature motif; other site 316057010658 Walker B; other site 316057010659 D-loop; other site 316057010660 H-loop/switch region; other site 316057010661 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057010662 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057010663 TM-ABC transporter signature motif; other site 316057010664 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057010665 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057010666 TM-ABC transporter signature motif; other site 316057010667 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057010668 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 316057010669 putative ligand binding site [chemical binding]; other site 316057010670 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 316057010671 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 316057010672 ATP binding site [chemical binding]; other site 316057010673 Mg++ binding site [ion binding]; other site 316057010674 motif III; other site 316057010675 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 316057010676 nucleotide binding region [chemical binding]; other site 316057010677 ATP-binding site [chemical binding]; other site 316057010678 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 316057010679 rRNA binding site [nucleotide binding]; other site 316057010680 predicted 30S ribosome binding site; other site 316057010681 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 316057010682 DNA-binding site [nucleotide binding]; DNA binding site 316057010683 RNA-binding motif; other site 316057010684 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316057010685 TadE-like protein; Region: TadE; pfam07811 316057010686 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316057010687 TadE-like protein; Region: TadE; pfam07811 316057010688 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 316057010689 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 316057010690 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 316057010691 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 316057010692 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 316057010693 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 316057010694 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 316057010695 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 316057010696 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 316057010697 Type IV pili component [Cell motility and secretion]; Region: COG5461 316057010698 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 316057010699 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 316057010700 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 316057010701 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 316057010702 ATP binding site [chemical binding]; other site 316057010703 Walker A motif; other site 316057010704 hexamer interface [polypeptide binding]; other site 316057010705 Walker B motif; other site 316057010706 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 316057010707 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316057010708 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 316057010709 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 316057010710 TPR repeat; Region: TPR_11; pfam13414 316057010711 binding surface 316057010712 TPR motif; other site 316057010713 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 316057010714 TPR motif; other site 316057010715 binding surface 316057010716 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316057010717 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 316057010718 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 316057010719 interface (dimer of trimers) [polypeptide binding]; other site 316057010720 Substrate-binding/catalytic site; other site 316057010721 Zn-binding sites [ion binding]; other site 316057010722 Src Homology 3 domain superfamily; Region: SH3; cl17036 316057010723 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316057010724 NlpC/P60 family; Region: NLPC_P60; pfam00877 316057010725 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 316057010726 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 316057010727 dimer interface [polypeptide binding]; other site 316057010728 active site 316057010729 ADP-ribose binding site [chemical binding]; other site 316057010730 nudix motif; other site 316057010731 metal binding site [ion binding]; metal-binding site 316057010732 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 316057010733 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057010734 Walker A/P-loop; other site 316057010735 ATP binding site [chemical binding]; other site 316057010736 Q-loop/lid; other site 316057010737 ABC transporter signature motif; other site 316057010738 Walker B; other site 316057010739 D-loop; other site 316057010740 H-loop/switch region; other site 316057010741 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057010742 Walker A/P-loop; other site 316057010743 ATP binding site [chemical binding]; other site 316057010744 Q-loop/lid; other site 316057010745 ABC transporter signature motif; other site 316057010746 Walker B; other site 316057010747 D-loop; other site 316057010748 H-loop/switch region; other site 316057010749 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057010750 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 316057010751 putative active site [active] 316057010752 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 316057010753 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 316057010754 dimer interface [polypeptide binding]; other site 316057010755 conserved gate region; other site 316057010756 ABC-ATPase subunit interface; other site 316057010757 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 316057010758 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 316057010759 dimer interface [polypeptide binding]; other site 316057010760 conserved gate region; other site 316057010761 putative PBP binding loops; other site 316057010762 ABC-ATPase subunit interface; other site 316057010763 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316057010764 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 316057010765 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316057010766 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 316057010767 Cytochrome c2 [Energy production and conversion]; Region: COG3474 316057010768 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 316057010769 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 316057010770 Ligand binding site; other site 316057010771 oligomer interface; other site 316057010772 prephenate dehydratase; Provisional; Region: PRK11899 316057010773 Prephenate dehydratase; Region: PDT; pfam00800 316057010774 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 316057010775 putative L-Phe binding site [chemical binding]; other site 316057010776 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 316057010777 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 316057010778 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 316057010779 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 316057010780 FAD binding site [chemical binding]; other site 316057010781 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 316057010782 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 316057010783 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 316057010784 substrate binding pocket [chemical binding]; other site 316057010785 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 316057010786 B12 binding site [chemical binding]; other site 316057010787 cobalt ligand [ion binding]; other site 316057010788 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 316057010789 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316057010790 Coenzyme A binding pocket [chemical binding]; other site 316057010791 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 316057010792 glycerol kinase; Provisional; Region: glpK; PRK00047 316057010793 N- and C-terminal domain interface [polypeptide binding]; other site 316057010794 active site 316057010795 MgATP binding site [chemical binding]; other site 316057010796 catalytic site [active] 316057010797 metal binding site [ion binding]; metal-binding site 316057010798 glycerol binding site [chemical binding]; other site 316057010799 homotetramer interface [polypeptide binding]; other site 316057010800 homodimer interface [polypeptide binding]; other site 316057010801 FBP binding site [chemical binding]; other site 316057010802 protein IIAGlc interface [polypeptide binding]; other site 316057010803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057010804 intermolecular recognition site; other site 316057010805 active site 316057010806 dimerization interface [polypeptide binding]; other site 316057010807 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 316057010808 DNA binding residues [nucleotide binding] 316057010809 dimerization interface [polypeptide binding]; other site 316057010810 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 316057010811 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316057010812 Zn2+ binding site [ion binding]; other site 316057010813 Mg2+ binding site [ion binding]; other site 316057010814 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 316057010815 dimerization interface [polypeptide binding]; other site 316057010816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057010817 dimer interface [polypeptide binding]; other site 316057010818 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057010819 putative CheW interface [polypeptide binding]; other site 316057010820 short chain dehydrogenase; Provisional; Region: PRK07035 316057010821 classical (c) SDRs; Region: SDR_c; cd05233 316057010822 NAD(P) binding site [chemical binding]; other site 316057010823 active site 316057010824 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 316057010825 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316057010826 active site 316057010827 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 316057010828 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057010829 active site 316057010830 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 316057010831 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 316057010832 dimer interface [polypeptide binding]; other site 316057010833 active site 316057010834 dicarboxylate--CoA ligase PimA; Region: pimA; TIGR03205 316057010835 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 316057010836 acyl-activating enzyme (AAE) consensus motif; other site 316057010837 putative AMP binding site [chemical binding]; other site 316057010838 putative active site [active] 316057010839 putative CoA binding site [chemical binding]; other site 316057010840 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 316057010841 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 316057010842 substrate binding site [chemical binding]; other site 316057010843 oxyanion hole (OAH) forming residues; other site 316057010844 trimer interface [polypeptide binding]; other site 316057010845 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316057010846 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316057010847 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316057010848 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316057010849 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 316057010850 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057010851 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057010852 Walker A/P-loop; other site 316057010853 ATP binding site [chemical binding]; other site 316057010854 Q-loop/lid; other site 316057010855 ABC transporter signature motif; other site 316057010856 Walker B; other site 316057010857 D-loop; other site 316057010858 H-loop/switch region; other site 316057010859 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057010860 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057010861 Walker A/P-loop; other site 316057010862 ATP binding site [chemical binding]; other site 316057010863 Q-loop/lid; other site 316057010864 ABC transporter signature motif; other site 316057010865 Walker B; other site 316057010866 D-loop; other site 316057010867 H-loop/switch region; other site 316057010868 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057010869 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057010870 TM-ABC transporter signature motif; other site 316057010871 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057010872 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057010873 TM-ABC transporter signature motif; other site 316057010874 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057010875 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057010876 putative ligand binding site [chemical binding]; other site 316057010877 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057010878 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057010879 putative ligand binding site [chemical binding]; other site 316057010880 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057010881 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057010882 putative ligand binding site [chemical binding]; other site 316057010883 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057010884 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057010885 putative ligand binding site [chemical binding]; other site 316057010886 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316057010887 dimerization interface [polypeptide binding]; other site 316057010888 metal binding site [ion binding]; metal-binding site 316057010889 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057010890 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 316057010891 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 316057010892 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 316057010893 metal binding site [ion binding]; metal-binding site 316057010894 putative dimer interface [polypeptide binding]; other site 316057010895 choline dehydrogenase; Validated; Region: PRK02106 316057010896 lycopene cyclase; Region: lycopene_cycl; TIGR01789 316057010897 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316057010898 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 316057010899 Ligand Binding Site [chemical binding]; other site 316057010900 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 316057010901 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 316057010902 inhibitor-cofactor binding pocket; inhibition site 316057010903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057010904 catalytic residue [active] 316057010905 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 316057010906 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 316057010907 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 316057010908 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 316057010909 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 316057010910 FeS/SAM binding site; other site 316057010911 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 316057010912 hypothetical protein; Provisional; Region: PRK07077 316057010913 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 316057010914 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 316057010915 Active site cavity [active] 316057010916 catalytic acid [active] 316057010917 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 316057010918 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 316057010919 active site lid residues [active] 316057010920 substrate binding pocket [chemical binding]; other site 316057010921 catalytic residues [active] 316057010922 substrate-Mg2+ binding site; other site 316057010923 aspartate-rich region 1; other site 316057010924 aspartate-rich region 2; other site 316057010925 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 316057010926 active site lid residues [active] 316057010927 substrate binding pocket [chemical binding]; other site 316057010928 catalytic residues [active] 316057010929 substrate-Mg2+ binding site; other site 316057010930 aspartate-rich region 1; other site 316057010931 aspartate-rich region 2; other site 316057010932 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 316057010933 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 316057010934 B12 binding site [chemical binding]; other site 316057010935 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 316057010936 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 316057010937 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316057010938 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 316057010939 dimerization interface [polypeptide binding]; other site 316057010940 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057010941 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057010942 dimer interface [polypeptide binding]; other site 316057010943 putative CheW interface [polypeptide binding]; other site 316057010944 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 316057010945 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057010946 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316057010947 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057010948 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 316057010949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 316057010950 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 316057010951 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316057010952 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057010953 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057010954 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 316057010955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 316057010956 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 316057010957 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 316057010958 MarR family; Region: MarR_2; cl17246 316057010959 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316057010960 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 316057010961 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 316057010962 putative substrate binding pocket [chemical binding]; other site 316057010963 trimer interface [polypeptide binding]; other site 316057010964 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 316057010965 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 316057010966 NAD binding site [chemical binding]; other site 316057010967 catalytic residues [active] 316057010968 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 316057010969 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 316057010970 tetramer interface [polypeptide binding]; other site 316057010971 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 316057010972 tetramer interface [polypeptide binding]; other site 316057010973 active site 316057010974 metal binding site [ion binding]; metal-binding site 316057010975 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 316057010976 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316057010977 hypothetical protein; Provisional; Region: PRK08266 316057010978 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316057010979 PYR/PP interface [polypeptide binding]; other site 316057010980 dimer interface [polypeptide binding]; other site 316057010981 TPP binding site [chemical binding]; other site 316057010982 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316057010983 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 316057010984 TPP-binding site [chemical binding]; other site 316057010985 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 316057010986 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 316057010987 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 316057010988 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 316057010989 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 316057010990 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057010991 ligand binding site [chemical binding]; other site 316057010992 flexible hinge region; other site 316057010993 enoyl-CoA hydratase; Provisional; Region: PRK05995 316057010994 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 316057010995 substrate binding site [chemical binding]; other site 316057010996 oxyanion hole (OAH) forming residues; other site 316057010997 trimer interface [polypeptide binding]; other site 316057010998 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 316057010999 putative FMN binding site [chemical binding]; other site 316057011000 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057011001 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 316057011002 FAD binding site [chemical binding]; other site 316057011003 substrate binding site [chemical binding]; other site 316057011004 catalytic base [active] 316057011005 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057011006 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 316057011007 FAD binding site [chemical binding]; other site 316057011008 substrate binding site [chemical binding]; other site 316057011009 catalytic base [active] 316057011010 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057011011 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057011012 active site 316057011013 acyl-CoA synthetase; Provisional; Region: PRK12582 316057011014 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 316057011015 acyl-activating enzyme (AAE) consensus motif; other site 316057011016 putative AMP binding site [chemical binding]; other site 316057011017 putative active site [active] 316057011018 putative CoA binding site [chemical binding]; other site 316057011019 enoyl-CoA hydratase; Provisional; Region: PRK06688 316057011020 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 316057011021 substrate binding site [chemical binding]; other site 316057011022 oxyanion hole (OAH) forming residues; other site 316057011023 trimer interface [polypeptide binding]; other site 316057011024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057011025 NAD(P) binding site [chemical binding]; other site 316057011026 active site 316057011027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057011028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057011029 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 316057011030 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 316057011031 dimer interface [polypeptide binding]; other site 316057011032 active site 316057011033 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057011034 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 316057011035 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057011036 acyl-activating enzyme (AAE) consensus motif; other site 316057011037 acyl-activating enzyme (AAE) consensus motif; other site 316057011038 putative AMP binding site [chemical binding]; other site 316057011039 putative active site [active] 316057011040 putative CoA binding site [chemical binding]; other site 316057011041 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057011042 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 316057011043 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 316057011044 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057011045 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057011046 active site 316057011047 Competence-damaged protein; Region: CinA; pfam02464 316057011048 camphor resistance protein CrcB; Provisional; Region: PRK14198 316057011049 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 316057011050 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316057011051 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316057011052 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057011053 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 316057011054 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 316057011055 putative efflux protein, MATE family; Region: matE; TIGR00797 316057011056 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316057011057 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 316057011058 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 316057011059 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057011060 active site 316057011061 metal binding site [ion binding]; metal-binding site 316057011062 DNA binding site [nucleotide binding] 316057011063 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057011064 AAA domain; Region: AAA_27; pfam13514 316057011065 Walker A/P-loop; other site 316057011066 ATP binding site [chemical binding]; other site 316057011067 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 316057011068 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 316057011069 ATP binding site [chemical binding]; other site 316057011070 putative Mg++ binding site [ion binding]; other site 316057011071 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316057011072 nucleotide binding region [chemical binding]; other site 316057011073 ATP-binding site [chemical binding]; other site 316057011074 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 316057011075 5' RNA guide strand anchoring site; other site 316057011076 active site 316057011077 TIR domain; Region: TIR_2; pfam13676 316057011078 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 316057011079 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 316057011080 active site 316057011081 DNA polymerase IV; Validated; Region: PRK02406 316057011082 DNA binding site [nucleotide binding] 316057011083 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316057011084 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 316057011085 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 316057011086 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 316057011087 dimerization interface [polypeptide binding]; other site 316057011088 putative DNA binding site [nucleotide binding]; other site 316057011089 putative Zn2+ binding site [ion binding]; other site 316057011090 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316057011091 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316057011092 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 316057011093 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 316057011094 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 316057011095 metal-binding site [ion binding] 316057011096 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316057011097 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316057011098 OpgC protein; Region: OpgC_C; pfam10129 316057011099 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 316057011100 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 316057011101 E3 interaction surface; other site 316057011102 lipoyl attachment site [posttranslational modification]; other site 316057011103 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057011104 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316057011105 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 316057011106 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057011107 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 316057011108 active site 316057011109 metal binding site [ion binding]; metal-binding site 316057011110 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 316057011111 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316057011112 Walker A motif; other site 316057011113 ATP binding site [chemical binding]; other site 316057011114 Walker B motif; other site 316057011115 arginine finger; other site 316057011116 Peptidase family M41; Region: Peptidase_M41; pfam01434 316057011117 Integrase core domain; Region: rve; pfam00665 316057011118 AAA domain; Region: AAA_22; pfam13401 316057011119 TniQ; Region: TniQ; pfam06527 316057011120 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 316057011121 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 316057011122 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057011123 putative substrate translocation pore; other site 316057011124 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 316057011125 FHIPEP family; Region: FHIPEP; pfam00771 316057011126 Anti-sigma-K factor rskA; Region: RskA; pfam10099 316057011127 RNA polymerase sigma factor; Provisional; Region: PRK12514 316057011128 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057011129 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 316057011130 DNA binding residues [nucleotide binding] 316057011131 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 316057011132 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 316057011133 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 316057011134 Walker A motif/ATP binding site; other site 316057011135 Walker B motif; other site 316057011136 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057011137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011138 active site 316057011139 phosphorylation site [posttranslational modification] 316057011140 intermolecular recognition site; other site 316057011141 dimerization interface [polypeptide binding]; other site 316057011142 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 316057011143 DNA binding site [nucleotide binding] 316057011144 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 316057011145 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 316057011146 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 316057011147 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 316057011148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011149 active site 316057011150 phosphorylation site [posttranslational modification] 316057011151 intermolecular recognition site; other site 316057011152 dimerization interface [polypeptide binding]; other site 316057011153 CheB methylesterase; Region: CheB_methylest; pfam01339 316057011154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011155 Response regulator receiver domain; Region: Response_reg; pfam00072 316057011156 active site 316057011157 phosphorylation site [posttranslational modification] 316057011158 intermolecular recognition site; other site 316057011159 dimerization interface [polypeptide binding]; other site 316057011160 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 316057011161 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 316057011162 putative binding surface; other site 316057011163 active site 316057011164 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 316057011165 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 316057011166 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 316057011167 ATP binding site [chemical binding]; other site 316057011168 Mg2+ binding site [ion binding]; other site 316057011169 G-X-G motif; other site 316057011170 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 316057011171 Response regulator receiver domain; Region: Response_reg; pfam00072 316057011172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011173 active site 316057011174 phosphorylation site [posttranslational modification] 316057011175 intermolecular recognition site; other site 316057011176 dimerization interface [polypeptide binding]; other site 316057011177 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 316057011178 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316057011179 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 316057011180 active site 316057011181 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 316057011182 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 316057011183 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 316057011184 Uncharacterized conserved protein [Function unknown]; Region: COG5361 316057011185 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 316057011186 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 316057011187 hypothetical protein; Validated; Region: PRK07586 316057011188 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316057011189 PYR/PP interface [polypeptide binding]; other site 316057011190 dimer interface [polypeptide binding]; other site 316057011191 TPP binding site [chemical binding]; other site 316057011192 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 316057011193 TPP-binding site [chemical binding]; other site 316057011194 dimer interface [polypeptide binding]; other site 316057011195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057011196 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057011197 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 316057011198 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 316057011199 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 316057011200 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 316057011201 isovaleryl-CoA dehydrogenase; Region: PLN02519 316057011202 substrate binding site [chemical binding]; other site 316057011203 FAD binding site [chemical binding]; other site 316057011204 catalytic base [active] 316057011205 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316057011206 Cytochrome P450; Region: p450; cl12078 316057011207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057011208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057011209 active site 316057011210 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057011211 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057011212 Uncharacterized conserved protein [Function unknown]; Region: COG3777 316057011213 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 316057011214 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 316057011215 active site 2 [active] 316057011216 active site 1 [active] 316057011217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 316057011218 benzoylformate decarboxylase; Reviewed; Region: PRK07092 316057011219 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316057011220 PYR/PP interface [polypeptide binding]; other site 316057011221 dimer interface [polypeptide binding]; other site 316057011222 TPP binding site [chemical binding]; other site 316057011223 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316057011224 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 316057011225 TPP-binding site [chemical binding]; other site 316057011226 dimer interface [polypeptide binding]; other site 316057011227 classical (c) SDRs; Region: SDR_c; cd05233 316057011228 NAD(P) binding site [chemical binding]; other site 316057011229 active site 316057011230 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 316057011231 YcjX-like family, DUF463; Region: DUF463; pfam04317 316057011232 hypothetical protein; Provisional; Region: PRK05415 316057011233 Domain of unknown function (DUF697); Region: DUF697; cl12064 316057011234 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316057011235 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 316057011236 catalytic loop [active] 316057011237 iron binding site [ion binding]; other site 316057011238 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316057011239 cyclase homology domain; Region: CHD; cd07302 316057011240 nucleotidyl binding site; other site 316057011241 metal binding site [ion binding]; metal-binding site 316057011242 dimer interface [polypeptide binding]; other site 316057011243 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 316057011244 Proline dehydrogenase; Region: Pro_dh; pfam01619 316057011245 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 316057011246 Glutamate binding site [chemical binding]; other site 316057011247 NAD binding site [chemical binding]; other site 316057011248 catalytic residues [active] 316057011249 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316057011250 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316057011251 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057011252 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 316057011253 putative C-terminal domain interface [polypeptide binding]; other site 316057011254 putative GSH binding site (G-site) [chemical binding]; other site 316057011255 putative dimer interface [polypeptide binding]; other site 316057011256 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316057011257 N-terminal domain interface [polypeptide binding]; other site 316057011258 dimer interface [polypeptide binding]; other site 316057011259 substrate binding pocket (H-site) [chemical binding]; other site 316057011260 Repair protein; Region: Repair_PSII; pfam04536 316057011261 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 316057011262 Repair protein; Region: Repair_PSII; pfam04536 316057011263 LemA family; Region: LemA; pfam04011 316057011264 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316057011265 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316057011266 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316057011267 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316057011268 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316057011269 inhibitor site; inhibition site 316057011270 active site 316057011271 dimer interface [polypeptide binding]; other site 316057011272 catalytic residue [active] 316057011273 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 316057011274 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316057011275 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 316057011276 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 316057011277 homodimer interface [polypeptide binding]; other site 316057011278 substrate-cofactor binding pocket; other site 316057011279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057011280 catalytic residue [active] 316057011281 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057011282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316057011283 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 316057011284 catalytic site [active] 316057011285 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 316057011286 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 316057011287 Walker A motif; other site 316057011288 ATP binding site [chemical binding]; other site 316057011289 Walker B motif; other site 316057011290 arginine finger; other site 316057011291 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 316057011292 multimerization interface [polypeptide binding]; other site 316057011293 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 316057011294 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 316057011295 homodimer interface [polypeptide binding]; other site 316057011296 active site 316057011297 heterodimer interface [polypeptide binding]; other site 316057011298 catalytic residue [active] 316057011299 metal binding site [ion binding]; metal-binding site 316057011300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057011301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057011302 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 316057011303 putative dimerization interface [polypeptide binding]; other site 316057011304 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 316057011305 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 316057011306 substrate-cofactor binding pocket; other site 316057011307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057011308 catalytic residue [active] 316057011309 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 316057011310 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 316057011311 diiron binding motif [ion binding]; other site 316057011312 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 316057011313 Bacterial PH domain; Region: DUF304; pfam03703 316057011314 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl17581 316057011315 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 316057011316 subunit M interaction residues [polypeptide binding]; other site 316057011317 subunit L interaction residues [polypeptide binding]; other site 316057011318 putative proton transfer pathway, P1; other site 316057011319 putative proton transfer pathway, P2; other site 316057011320 PUCC protein; Region: PUCC; pfam03209 316057011321 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 316057011322 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 316057011323 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 316057011324 S-adenosylmethionine binding site [chemical binding]; other site 316057011325 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 316057011326 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 316057011327 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 316057011328 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 316057011329 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316057011330 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316057011331 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 316057011332 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 316057011333 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 316057011334 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 316057011335 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 316057011336 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 316057011337 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 316057011338 B12 binding domain; Region: B12-binding_2; pfam02607 316057011339 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 316057011340 B12 binding site [chemical binding]; other site 316057011341 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 316057011342 heme binding pocket [chemical binding]; other site 316057011343 heme ligand [chemical binding]; other site 316057011344 PAS fold; Region: PAS_2; pfam08446 316057011345 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057011346 GAF domain; Region: GAF; pfam01590 316057011347 Phytochrome region; Region: PHY; pfam00360 316057011348 PAS domain; Region: PAS_9; pfam13426 316057011349 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 316057011350 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 316057011351 putative active site [active] 316057011352 heme pocket [chemical binding]; other site 316057011353 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057011354 Cytochrome c; Region: Cytochrom_C; cl11414 316057011355 TspO/MBR family; Region: TspO_MBR; pfam03073 316057011356 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 316057011357 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057011358 PUCC protein; Region: PUCC; pfam03209 316057011359 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 316057011360 UbiA prenyltransferase family; Region: UbiA; pfam01040 316057011361 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 316057011362 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 316057011363 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057011364 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 316057011365 subunit H interface; other site 316057011366 subunit L interface; other site 316057011367 bacteriopheophytin binding site; other site 316057011368 carotenoid binding site; other site 316057011369 bacteriochlorophyll binding site; other site 316057011370 cytochrome C interface; other site 316057011371 quinone binding site; other site 316057011372 Fe binding site [ion binding]; other site 316057011373 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 316057011374 subunit M interface; other site 316057011375 subunit H interface; other site 316057011376 quinone binding site; other site 316057011377 bacteriopheophytin binding site; other site 316057011378 bacteriochlorophyll binding site; other site 316057011379 cytochrome C subunit interface; other site 316057011380 Fe binding site [ion binding]; other site 316057011381 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057011382 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057011383 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 316057011384 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 316057011385 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 316057011386 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 316057011387 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 316057011388 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 316057011389 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 316057011390 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 316057011391 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 316057011392 putative NAD(P) binding site [chemical binding]; other site 316057011393 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 316057011394 S-adenosylmethionine binding site [chemical binding]; other site 316057011395 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316057011396 substrate binding pocket [chemical binding]; other site 316057011397 chain length determination region; other site 316057011398 substrate-Mg2+ binding site; other site 316057011399 catalytic residues [active] 316057011400 aspartate-rich region 1; other site 316057011401 active site lid residues [active] 316057011402 aspartate-rich region 2; other site 316057011403 phytoene desaturase; Region: crtI_fam; TIGR02734 316057011404 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057011405 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 316057011406 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 316057011407 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 316057011408 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 316057011409 active site lid residues [active] 316057011410 substrate binding pocket [chemical binding]; other site 316057011411 catalytic residues [active] 316057011412 substrate-Mg2+ binding site; other site 316057011413 aspartate-rich region 1; other site 316057011414 aspartate-rich region 2; other site 316057011415 phytoene desaturase; Region: crtI_fam; TIGR02734 316057011416 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316057011417 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 316057011418 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057011419 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057011420 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 316057011421 substrate binding site [chemical binding]; other site 316057011422 active site 316057011423 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 316057011424 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 316057011425 metal ion-dependent adhesion site (MIDAS); other site 316057011426 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 316057011427 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 316057011428 Walker A motif; other site 316057011429 ATP binding site [chemical binding]; other site 316057011430 Walker B motif; other site 316057011431 arginine finger; other site 316057011432 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 316057011433 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; cl17708 316057011434 domain interfaces; other site 316057011435 active site 316057011436 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 316057011437 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316057011438 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 316057011439 Domain of unknown function (DUF427); Region: DUF427; cl00998 316057011440 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 316057011441 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 316057011442 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 316057011443 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316057011444 Protein export membrane protein; Region: SecD_SecF; cl14618 316057011445 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 316057011446 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057011447 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057011448 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 316057011449 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316057011450 PUCC protein; Region: PUCC; pfam03209 316057011451 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057011452 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057011453 PAS fold; Region: PAS_2; pfam08446 316057011454 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316057011455 GAF domain; Region: GAF; pfam01590 316057011456 Phytochrome region; Region: PHY; pfam00360 316057011457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 316057011458 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 316057011459 ATP binding site [chemical binding]; other site 316057011460 Mg2+ binding site [ion binding]; other site 316057011461 G-X-G motif; other site 316057011462 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316057011463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011464 active site 316057011465 phosphorylation site [posttranslational modification] 316057011466 intermolecular recognition site; other site 316057011467 dimerization interface [polypeptide binding]; other site 316057011468 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 316057011469 DNA binding residues [nucleotide binding] 316057011470 dimerization interface [polypeptide binding]; other site 316057011471 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 316057011472 NnrS protein; Region: NnrS; pfam05940 316057011473 NnrU protein; Region: NnrU; pfam07298 316057011474 phosphoglucomutase; Validated; Region: PRK07564 316057011475 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 316057011476 active site 316057011477 substrate binding site [chemical binding]; other site 316057011478 metal binding site [ion binding]; metal-binding site 316057011479 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316057011480 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316057011481 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316057011482 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 316057011483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011484 active site 316057011485 phosphorylation site [posttranslational modification] 316057011486 intermolecular recognition site; other site 316057011487 dimerization interface [polypeptide binding]; other site 316057011488 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316057011489 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057011490 active site 316057011491 metal binding site [ion binding]; metal-binding site 316057011492 hexamer interface [polypeptide binding]; other site 316057011493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057011494 Q-loop/lid; other site 316057011495 Walker B; other site 316057011496 D-loop; other site 316057011497 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316057011498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316057011499 DNA-binding site [nucleotide binding]; DNA binding site 316057011500 FCD domain; Region: FCD; pfam07729 316057011501 allophanate hydrolase; Provisional; Region: PRK08186 316057011502 Amidase; Region: Amidase; cl11426 316057011503 Peptidase C26; Region: Peptidase_C26; pfam07722 316057011504 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 316057011505 catalytic triad [active] 316057011506 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 316057011507 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057011508 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 316057011509 ligand binding site [chemical binding]; other site 316057011510 flexible hinge region; other site 316057011511 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057011512 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057011513 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057011514 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057011515 acyl-activating enzyme (AAE) consensus motif; other site 316057011516 acyl-activating enzyme (AAE) consensus motif; other site 316057011517 putative AMP binding site [chemical binding]; other site 316057011518 putative active site [active] 316057011519 putative CoA binding site [chemical binding]; other site 316057011520 enoyl-CoA hydratase; Provisional; Region: PRK08140 316057011521 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 316057011522 substrate binding site [chemical binding]; other site 316057011523 oxyanion hole (OAH) forming residues; other site 316057011524 trimer interface [polypeptide binding]; other site 316057011525 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057011526 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057011527 active site 316057011528 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057011529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057011530 NAD(P) binding site [chemical binding]; other site 316057011531 active site 316057011532 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 316057011533 active site 316057011534 catalytic site [active] 316057011535 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 316057011536 active site 316057011537 catalytic site [active] 316057011538 lipid-transfer protein; Provisional; Region: PRK08256 316057011539 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 316057011540 active site 316057011541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057011542 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057011543 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057011544 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057011545 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057011546 acyl-activating enzyme (AAE) consensus motif; other site 316057011547 acyl-activating enzyme (AAE) consensus motif; other site 316057011548 putative AMP binding site [chemical binding]; other site 316057011549 putative active site [active] 316057011550 putative CoA binding site [chemical binding]; other site 316057011551 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 316057011552 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 316057011553 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 316057011554 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 316057011555 active site 316057011556 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 316057011557 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 316057011558 trimer interface [polypeptide binding]; other site 316057011559 active site 316057011560 substrate binding site [chemical binding]; other site 316057011561 CoA binding site [chemical binding]; other site 316057011562 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 316057011563 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 316057011564 Walker A/P-loop; other site 316057011565 ATP binding site [chemical binding]; other site 316057011566 Q-loop/lid; other site 316057011567 ABC transporter signature motif; other site 316057011568 Walker B; other site 316057011569 D-loop; other site 316057011570 H-loop/switch region; other site 316057011571 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 316057011572 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 316057011573 substrate binding pocket [chemical binding]; other site 316057011574 membrane-bound complex binding site; other site 316057011575 hinge residues; other site 316057011576 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 316057011577 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 316057011578 dimer interface [polypeptide binding]; other site 316057011579 conserved gate region; other site 316057011580 putative PBP binding loops; other site 316057011581 ABC-ATPase subunit interface; other site 316057011582 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 316057011583 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 316057011584 dimer interface [polypeptide binding]; other site 316057011585 conserved gate region; other site 316057011586 ABC-ATPase subunit interface; other site 316057011587 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 316057011588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316057011589 DNA-binding site [nucleotide binding]; DNA binding site 316057011590 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 316057011591 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 316057011592 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 316057011593 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 316057011594 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 316057011595 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 316057011596 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057011597 Walker A/P-loop; other site 316057011598 ATP binding site [chemical binding]; other site 316057011599 Q-loop/lid; other site 316057011600 ABC transporter signature motif; other site 316057011601 Walker B; other site 316057011602 D-loop; other site 316057011603 H-loop/switch region; other site 316057011604 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057011605 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 316057011606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057011607 Walker A/P-loop; other site 316057011608 ATP binding site [chemical binding]; other site 316057011609 Q-loop/lid; other site 316057011610 ABC transporter signature motif; other site 316057011611 Walker B; other site 316057011612 D-loop; other site 316057011613 H-loop/switch region; other site 316057011614 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 316057011615 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 316057011616 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 316057011617 active site 316057011618 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 316057011619 active site 316057011620 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 316057011621 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 316057011622 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316057011623 dimerization interface [polypeptide binding]; other site 316057011624 DPS ferroxidase diiron center [ion binding]; other site 316057011625 ion pore; other site 316057011626 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 316057011627 HAMP domain; Region: HAMP; pfam00672 316057011628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057011629 dimer interface [polypeptide binding]; other site 316057011630 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057011631 putative CheW interface [polypeptide binding]; other site 316057011632 PilZ domain; Region: PilZ; pfam07238 316057011633 AAA domain; Region: AAA_30; pfam13604 316057011634 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 316057011635 Family description; Region: UvrD_C_2; pfam13538 316057011636 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057011637 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057011638 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 316057011639 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316057011640 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 316057011641 Walker A motif; other site 316057011642 ATP binding site [chemical binding]; other site 316057011643 Walker B motif; other site 316057011644 arginine finger; other site 316057011645 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316057011646 flagellar motor switch protein; Reviewed; Region: PRK08916 316057011647 flagellar assembly protein H; Validated; Region: fliH; PRK06032 316057011648 Flagellar assembly protein FliH; Region: FliH; pfam02108 316057011649 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 316057011650 MgtE intracellular N domain; Region: MgtE_N; cl15244 316057011651 FliG C-terminal domain; Region: FliG_C; pfam01706 316057011652 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 316057011653 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 316057011654 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 316057011655 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 316057011656 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316057011657 FAD binding domain; Region: FAD_binding_4; pfam01565 316057011658 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 316057011659 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 316057011660 active site 316057011661 catalytic triad [active] 316057011662 oxyanion hole [active] 316057011663 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057011664 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 316057011665 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 316057011666 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 316057011667 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 316057011668 hydrogenase 4 subunit F; Validated; Region: PRK06458 316057011669 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057011670 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 316057011671 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316057011672 NADH dehydrogenase; Region: NADHdh; cl00469 316057011673 hydrogenase 4 subunit B; Validated; Region: PRK06521 316057011674 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316057011675 cobalamin synthase; Reviewed; Region: cobS; PRK00235 316057011676 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 316057011677 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 316057011678 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 316057011679 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 316057011680 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057011681 Walker A/P-loop; other site 316057011682 ATP binding site [chemical binding]; other site 316057011683 Q-loop/lid; other site 316057011684 ABC transporter signature motif; other site 316057011685 Walker B; other site 316057011686 D-loop; other site 316057011687 H-loop/switch region; other site 316057011688 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316057011689 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057011690 Walker A/P-loop; other site 316057011691 ATP binding site [chemical binding]; other site 316057011692 Q-loop/lid; other site 316057011693 ABC transporter signature motif; other site 316057011694 Walker B; other site 316057011695 D-loop; other site 316057011696 H-loop/switch region; other site 316057011697 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057011698 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057011699 TM-ABC transporter signature motif; other site 316057011700 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057011701 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057011702 TM-ABC transporter signature motif; other site 316057011703 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057011704 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 316057011705 putative ligand binding site [chemical binding]; other site 316057011706 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 316057011707 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 316057011708 Na binding site [ion binding]; other site 316057011709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057011710 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 316057011711 dimer interface [polypeptide binding]; other site 316057011712 phosphorylation site [posttranslational modification] 316057011713 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 316057011714 ATP binding site [chemical binding]; other site 316057011715 Mg2+ binding site [ion binding]; other site 316057011716 G-X-G motif; other site 316057011717 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316057011718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011719 active site 316057011720 phosphorylation site [posttranslational modification] 316057011721 intermolecular recognition site; other site 316057011722 dimerization interface [polypeptide binding]; other site 316057011723 Response regulator receiver domain; Region: Response_reg; pfam00072 316057011724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011725 active site 316057011726 phosphorylation site [posttranslational modification] 316057011727 intermolecular recognition site; other site 316057011728 dimerization interface [polypeptide binding]; other site 316057011729 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 316057011730 DNA binding residues [nucleotide binding] 316057011731 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 316057011732 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316057011733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057011734 acyl-activating enzyme (AAE) consensus motif; other site 316057011735 AMP binding site [chemical binding]; other site 316057011736 active site 316057011737 CoA binding site [chemical binding]; other site 316057011738 Membrane fusogenic activity; Region: BMFP; pfam04380 316057011739 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316057011740 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 316057011741 Uncharacterized conserved protein [Function unknown]; Region: COG1565 316057011742 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 316057011743 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 316057011744 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 316057011745 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 316057011746 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057011747 active site 316057011748 riboflavin synthase subunit beta; Provisional; Region: PRK12419 316057011749 active site 316057011750 homopentamer interface [polypeptide binding]; other site 316057011751 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 316057011752 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 316057011753 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 316057011754 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057011755 HAMP domain; Region: HAMP; pfam00672 316057011756 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 316057011757 dimer interface [polypeptide binding]; other site 316057011758 phosphorylation site [posttranslational modification] 316057011759 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 316057011760 ATP binding site [chemical binding]; other site 316057011761 Mg2+ binding site [ion binding]; other site 316057011762 G-X-G motif; other site 316057011763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057011764 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 316057011765 active site 316057011766 phosphorylation site [posttranslational modification] 316057011767 intermolecular recognition site; other site 316057011768 dimerization interface [polypeptide binding]; other site 316057011769 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 316057011770 DNA binding site [nucleotide binding] 316057011771 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316057011772 MarR family; Region: MarR_2; pfam12802 316057011773 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 316057011774 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 316057011775 homodimer interface [polypeptide binding]; other site 316057011776 substrate-cofactor binding pocket; other site 316057011777 catalytic residue [active] 316057011778 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316057011779 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 316057011780 S-adenosylmethionine binding site [chemical binding]; other site 316057011781 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057011782 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316057011783 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 316057011784 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 316057011785 GDP-binding site [chemical binding]; other site 316057011786 ACT binding site; other site 316057011787 IMP binding site; other site 316057011788 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 316057011789 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316057011790 active site 316057011791 catalytic tetrad [active] 316057011792 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316057011793 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 316057011794 S-adenosylmethionine binding site [chemical binding]; other site 316057011795 EamA-like transporter family; Region: EamA; pfam00892 316057011796 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316057011797 EamA-like transporter family; Region: EamA; pfam00892 316057011798 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316057011799 EamA-like transporter family; Region: EamA; pfam00892 316057011800 EamA-like transporter family; Region: EamA; pfam00892 316057011801 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316057011802 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316057011803 diiron binding motif [ion binding]; other site 316057011804 Uncharacterized conserved protein [Function unknown]; Region: COG1633 316057011805 CCC1-related family of proteins; Region: CCC1_like; cl00278 316057011806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 316057011807 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 316057011808 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 316057011809 dimerization interface [polypeptide binding]; other site 316057011810 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057011811 dimer interface [polypeptide binding]; other site 316057011812 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316057011813 putative CheW interface [polypeptide binding]; other site 316057011814 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 316057011815 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 316057011816 ligand binding site [chemical binding]; other site 316057011817 NAD binding site [chemical binding]; other site 316057011818 dimerization interface [polypeptide binding]; other site 316057011819 catalytic site [active] 316057011820 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 316057011821 putative L-serine binding site [chemical binding]; other site 316057011822 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; cd01494 316057011823 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057011824 catalytic residue [active] 316057011825 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316057011826 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057011827 dimer interface [polypeptide binding]; other site 316057011828 putative CheW interface [polypeptide binding]; other site 316057011829 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 316057011830 PAS fold; Region: PAS_3; pfam08447 316057011831 putative active site [active] 316057011832 heme pocket [chemical binding]; other site 316057011833 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316057011834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057011835 Coenzyme A binding pocket [chemical binding]; other site 316057011836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057011837 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 316057011838 putative C-terminal domain interface [polypeptide binding]; other site 316057011839 putative GSH binding site (G-site) [chemical binding]; other site 316057011840 putative dimer interface [polypeptide binding]; other site 316057011841 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316057011842 N-terminal domain interface [polypeptide binding]; other site 316057011843 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057011844 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057011845 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 316057011846 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057011847 putative substrate translocation pore; other site 316057011848 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 316057011849 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 316057011850 active site 316057011851 substrate binding site [chemical binding]; other site 316057011852 metal binding site [ion binding]; metal-binding site 316057011853 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 316057011854 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 316057011855 phosphate binding site [ion binding]; other site 316057011856 enoyl-CoA hydratase; Provisional; Region: PRK09245 316057011857 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 316057011858 substrate binding site [chemical binding]; other site 316057011859 oxyanion hole (OAH) forming residues; other site 316057011860 trimer interface [polypeptide binding]; other site 316057011861 Predicted membrane protein [Function unknown]; Region: COG2860 316057011862 UPF0126 domain; Region: UPF0126; pfam03458 316057011863 UPF0126 domain; Region: UPF0126; pfam03458 316057011864 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 316057011865 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 316057011866 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 316057011867 shikimate binding site; other site 316057011868 NAD(P) binding site [chemical binding]; other site 316057011869 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 316057011870 non-specific DNA binding site [nucleotide binding]; other site 316057011871 salt bridge; other site 316057011872 sequence-specific DNA binding site [nucleotide binding]; other site 316057011873 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 316057011874 elongation factor G; Reviewed; Region: PRK12740 316057011875 G1 box; other site 316057011876 putative GEF interaction site [polypeptide binding]; other site 316057011877 GTP/Mg2+ binding site [chemical binding]; other site 316057011878 Switch I region; other site 316057011879 G2 box; other site 316057011880 G3 box; other site 316057011881 Switch II region; other site 316057011882 G4 box; other site 316057011883 G5 box; other site 316057011884 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 316057011885 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 316057011886 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 316057011887 Protein of unknown function (DUF992); Region: DUF992; pfam06186 316057011888 Protein of unknown function (DUF992); Region: DUF992; pfam06186 316057011889 aspartate aminotransferase; Provisional; Region: PRK05764 316057011890 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 316057011891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057011892 homodimer interface [polypeptide binding]; other site 316057011893 catalytic residue [active] 316057011894 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057011895 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 316057011896 putative C-terminal domain interface [polypeptide binding]; other site 316057011897 putative GSH binding site (G-site) [chemical binding]; other site 316057011898 putative dimer interface [polypeptide binding]; other site 316057011899 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 316057011900 dimer interface [polypeptide binding]; other site 316057011901 N-terminal domain interface [polypeptide binding]; other site 316057011902 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 316057011903 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 316057011904 Protein of unknown function, DUF486; Region: DUF486; cl01236 316057011905 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 316057011906 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316057011907 putative acyl-acceptor binding pocket; other site 316057011908 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 316057011909 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316057011910 active site 316057011911 catalytic tetrad [active] 316057011912 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 316057011913 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316057011914 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 316057011915 motif II; other site 316057011916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 316057011917 Transposase; Region: DDE_Tnp_ISL3; pfam01610 316057011918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 316057011919 Transposase; Region: DDE_Tnp_ISL3; pfam01610 316057011920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 316057011921 Transposase; Region: DEDD_Tnp_IS110; pfam01548 316057011922 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 316057011923 Restriction endonuclease; Region: Mrr_cat; pfam04471 316057011924 MobA/MobL family; Region: MobA_MobL; pfam03389 316057011925 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 316057011926 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 316057011927 Walker A motif; other site 316057011928 ATP binding site [chemical binding]; other site 316057011929 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057011930 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 316057011931 Walker A motif; other site 316057011932 ATP binding site [chemical binding]; other site 316057011933 Walker B motif; other site 316057011934 arginine finger; other site 316057011935 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 316057011936 Protein of unknown function DUF262; Region: DUF262; pfam03235 316057011937 Uncharacterized conserved protein [Function unknown]; Region: COG1479 316057011938 Protein of unknown function DUF262; Region: DUF262; pfam03235 316057011939 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 316057011940 Conjugal transfer protein TraD; Region: TraD; pfam06412 316057011941 Conjugal transfer protein TraD; Region: TraD; pfam06412 316057011942 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 316057011943 MobA/MobL family; Region: MobA_MobL; pfam03389 316057011944 AAA domain; Region: AAA_30; pfam13604 316057011945 Family description; Region: UvrD_C_2; pfam13538 316057011946 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 316057011947 HNH endonuclease; Region: HNH_5; pfam14279 316057011948 Family description; Region: UvrD_C_2; pfam13538 316057011949 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316057011950 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 316057011951 catalytic residues [active] 316057011952 catalytic nucleophile [active] 316057011953 Recombinase; Region: Recombinase; pfam07508 316057011954 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 316057011955 Merozoite surface protein 1 (MSP1) C-terminus; Region: MSP1_C; pfam07462 316057011956 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 316057011957 S-adenosylmethionine binding site [chemical binding]; other site 316057011958 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 316057011959 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 316057011960 Ligand Binding Site [chemical binding]; other site 316057011961 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 316057011962 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 316057011963 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 316057011964 Transglycosylase SLT domain; Region: SLT_2; pfam13406 316057011965 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 316057011966 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 316057011967 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316057011968 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 316057011969 intracellular protease, PfpI family; Region: PfpI; TIGR01382 316057011970 proposed catalytic triad [active] 316057011971 conserved cys residue [active] 316057011972 Cupin domain; Region: Cupin_2; cl17218 316057011973 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 316057011974 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 316057011975 dimer interface [polypeptide binding]; other site 316057011976 active site 316057011977 CoA binding pocket [chemical binding]; other site 316057011978 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 316057011979 sequence-specific DNA binding site [nucleotide binding]; other site 316057011980 salt bridge; other site 316057011981 Fic/DOC family; Region: Fic; pfam02661 316057011982 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 316057011983 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316057011984 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 316057011985 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 316057011986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057011987 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316057011988 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 316057011989 DNA binding residues [nucleotide binding] 316057011990 DNA primase, catalytic core; Region: dnaG; TIGR01391 316057011991 CHC2 zinc finger; Region: zf-CHC2; cl17510 316057011992 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 316057011993 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 316057011994 active site 316057011995 metal binding site [ion binding]; metal-binding site 316057011996 interdomain interaction site; other site 316057011997 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 316057011998 Protein of unknown function (DUF497); Region: DUF497; pfam04365 316057011999 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 316057012000 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 316057012001 putative active site pocket [active] 316057012002 dimerization interface [polypeptide binding]; other site 316057012003 putative catalytic residue [active] 316057012004 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316057012005 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316057012006 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316057012007 N-formylglutamate amidohydrolase; Region: FGase; cl01522 316057012008 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316057012009 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 316057012010 putative DNA binding site [nucleotide binding]; other site 316057012011 putative Zn2+ binding site [ion binding]; other site 316057012012 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 316057012013 putative hydrophobic ligand binding site [chemical binding]; other site 316057012014 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 316057012015 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 316057012016 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 316057012017 active site 316057012018 acyl-activating enzyme (AAE) consensus motif; other site 316057012019 putative CoA binding site [chemical binding]; other site 316057012020 AMP binding site [chemical binding]; other site 316057012021 Yqey-like protein; Region: YqeY; pfam09424 316057012022 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 316057012023 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 316057012024 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 316057012025 catalytic site [active] 316057012026 subunit interface [polypeptide binding]; other site 316057012027 excinuclease ABC subunit B; Provisional; Region: PRK05298 316057012028 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 316057012029 ATP binding site [chemical binding]; other site 316057012030 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 316057012031 nucleotide binding region [chemical binding]; other site 316057012032 ATP-binding site [chemical binding]; other site 316057012033 Ultra-violet resistance protein B; Region: UvrB; pfam12344 316057012034 UvrB/uvrC motif; Region: UVR; pfam02151 316057012035 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 316057012036 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 316057012037 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 316057012038 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 316057012039 dimer interface [polypeptide binding]; other site 316057012040 active site 316057012041 SnoaL-like domain; Region: SnoaL_2; pfam12680 316057012042 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 316057012043 putative active site [active] 316057012044 putative catalytic site [active] 316057012045 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 316057012046 putative active site [active] 316057012047 putative catalytic site [active] 316057012048 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 316057012049 GTP-binding protein YchF; Reviewed; Region: PRK09601 316057012050 YchF GTPase; Region: YchF; cd01900 316057012051 G1 box; other site 316057012052 GTP/Mg2+ binding site [chemical binding]; other site 316057012053 Switch I region; other site 316057012054 G2 box; other site 316057012055 Switch II region; other site 316057012056 G3 box; other site 316057012057 G4 box; other site 316057012058 G5 box; other site 316057012059 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 316057012060 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 316057012061 putative active site [active] 316057012062 catalytic residue [active] 316057012063 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 316057012064 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 316057012065 5S rRNA interface [nucleotide binding]; other site 316057012066 CTC domain interface [polypeptide binding]; other site 316057012067 L16 interface [polypeptide binding]; other site 316057012068 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 316057012069 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316057012070 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316057012071 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 316057012072 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316057012073 enoyl-CoA hydratase; Provisional; Region: PRK08290 316057012074 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 316057012075 substrate binding site [chemical binding]; other site 316057012076 oxyanion hole (OAH) forming residues; other site 316057012077 trimer interface [polypeptide binding]; other site 316057012078 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 316057012079 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316057012080 active site 316057012081 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 316057012082 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057012083 active site 316057012084 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316057012085 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057012086 acyl-activating enzyme (AAE) consensus motif; other site 316057012087 AMP binding site [chemical binding]; other site 316057012088 active site 316057012089 CoA binding site [chemical binding]; other site 316057012090 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 316057012091 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 316057012092 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 316057012093 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 316057012094 TPP-binding site [chemical binding]; other site 316057012095 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 316057012096 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316057012097 dimer interface [polypeptide binding]; other site 316057012098 PYR/PP interface [polypeptide binding]; other site 316057012099 TPP binding site [chemical binding]; other site 316057012100 substrate binding site [chemical binding]; other site 316057012101 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 316057012102 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 316057012103 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316057012104 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 316057012105 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316057012106 dimer interface [polypeptide binding]; other site 316057012107 PYR/PP interface [polypeptide binding]; other site 316057012108 TPP binding site [chemical binding]; other site 316057012109 substrate binding site [chemical binding]; other site 316057012110 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 316057012111 TPP-binding site; other site 316057012112 CHAD domain; Region: CHAD; pfam05235 316057012113 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 316057012114 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 316057012115 cyclase homology domain; Region: CHD; cd07302 316057012116 nucleotidyl binding site; other site 316057012117 metal binding site [ion binding]; metal-binding site 316057012118 dimer interface [polypeptide binding]; other site 316057012119 FOG: CBS domain [General function prediction only]; Region: COG0517 316057012120 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 316057012121 Ion transport protein; Region: Ion_trans; pfam00520 316057012122 Ion channel; Region: Ion_trans_2; pfam07885 316057012123 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057012124 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 316057012125 ligand binding site [chemical binding]; other site 316057012126 flexible hinge region; other site 316057012127 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316057012128 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 316057012129 hypothetical protein; Provisional; Region: PRK07338 316057012130 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 316057012131 metal binding site [ion binding]; metal-binding site 316057012132 dimer interface [polypeptide binding]; other site 316057012133 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316057012134 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 316057012135 dimer interface [polypeptide binding]; other site 316057012136 conserved gate region; other site 316057012137 putative PBP binding loops; other site 316057012138 ABC-ATPase subunit interface; other site 316057012139 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 316057012140 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 316057012141 dimer interface [polypeptide binding]; other site 316057012142 conserved gate region; other site 316057012143 putative PBP binding loops; other site 316057012144 ABC-ATPase subunit interface; other site 316057012145 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316057012146 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057012147 Walker A/P-loop; other site 316057012148 ATP binding site [chemical binding]; other site 316057012149 Q-loop/lid; other site 316057012150 ABC transporter signature motif; other site 316057012151 Walker B; other site 316057012152 D-loop; other site 316057012153 H-loop/switch region; other site 316057012154 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057012155 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316057012156 Walker A/P-loop; other site 316057012157 ATP binding site [chemical binding]; other site 316057012158 Q-loop/lid; other site 316057012159 ABC transporter signature motif; other site 316057012160 Walker B; other site 316057012161 D-loop; other site 316057012162 H-loop/switch region; other site 316057012163 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316057012164 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 316057012165 catalytic triad [active] 316057012166 dimer interface [polypeptide binding]; other site 316057012167 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 316057012168 RNA/DNA hybrid binding site [nucleotide binding]; other site 316057012169 active site 316057012170 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 316057012171 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 316057012172 putative active site [active] 316057012173 putative substrate binding site [chemical binding]; other site 316057012174 ATP binding site [chemical binding]; other site 316057012175 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 316057012176 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 316057012177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 316057012178 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 316057012179 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 316057012180 ATP binding site [chemical binding]; other site 316057012181 Mg2+ binding site [ion binding]; other site 316057012182 G-X-G motif; other site 316057012183 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 316057012184 ATP binding site [chemical binding]; other site 316057012185 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 316057012186 hypothetical protein; Provisional; Region: PRK09256 316057012187 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 316057012188 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316057012189 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316057012190 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316057012191 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316057012192 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316057012193 lipoprotein signal peptidase; Provisional; Region: PRK14796 316057012194 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 316057012195 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316057012196 active site 316057012197 HIGH motif; other site 316057012198 nucleotide binding site [chemical binding]; other site 316057012199 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 316057012200 active site 316057012201 KMSKS motif; other site 316057012202 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 316057012203 tRNA binding surface [nucleotide binding]; other site 316057012204 anticodon binding site; other site 316057012205 maltose O-acetyltransferase; Provisional; Region: PRK10092 316057012206 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 316057012207 active site 316057012208 substrate binding site [chemical binding]; other site 316057012209 trimer interface [polypeptide binding]; other site 316057012210 CoA binding site [chemical binding]; other site 316057012211 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 316057012212 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 316057012213 active site 316057012214 Riboflavin kinase; Region: Flavokinase; smart00904 316057012215 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 316057012216 B1 nucleotide binding pocket [chemical binding]; other site 316057012217 B2 nucleotide binding pocket [chemical binding]; other site 316057012218 CAS motifs; other site 316057012219 active site 316057012220 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 316057012221 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 316057012222 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 316057012223 Predicted acetyltransferase [General function prediction only]; Region: COG3153 316057012224 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316057012225 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316057012226 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 316057012227 nudix motif; other site 316057012228 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 316057012229 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 316057012230 putative active site [active] 316057012231 putative metal binding site [ion binding]; other site 316057012232 isocitrate lyase; Provisional; Region: PRK15063 316057012233 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 316057012234 tetramer interface [polypeptide binding]; other site 316057012235 active site 316057012236 Mg2+/Mn2+ binding site [ion binding]; other site 316057012237 isocitrate lyase; Region: PLN02892 316057012238 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316057012239 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 316057012240 non-specific DNA binding site [nucleotide binding]; other site 316057012241 salt bridge; other site 316057012242 sequence-specific DNA binding site [nucleotide binding]; other site 316057012243 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 316057012244 Domain of unknown function (DUF955); Region: DUF955; pfam06114 316057012245 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 316057012246 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316057012247 murein hydrolase B; Provisional; Region: PRK10760; cl17906 316057012248 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057012249 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057012250 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 316057012251 putative ligand binding site [chemical binding]; other site 316057012252 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057012253 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057012254 Walker A/P-loop; other site 316057012255 ATP binding site [chemical binding]; other site 316057012256 Q-loop/lid; other site 316057012257 ABC transporter signature motif; other site 316057012258 Walker B; other site 316057012259 D-loop; other site 316057012260 H-loop/switch region; other site 316057012261 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057012262 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057012263 Walker A/P-loop; other site 316057012264 ATP binding site [chemical binding]; other site 316057012265 Q-loop/lid; other site 316057012266 ABC transporter signature motif; other site 316057012267 Walker B; other site 316057012268 D-loop; other site 316057012269 H-loop/switch region; other site 316057012270 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057012271 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057012272 TM-ABC transporter signature motif; other site 316057012273 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057012274 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057012275 TM-ABC transporter signature motif; other site 316057012276 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 316057012277 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 316057012278 FMN binding site [chemical binding]; other site 316057012279 active site 316057012280 substrate binding site [chemical binding]; other site 316057012281 catalytic residue [active] 316057012282 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316057012283 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 316057012284 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316057012285 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 316057012286 dimer interface [polypeptide binding]; other site 316057012287 conserved gate region; other site 316057012288 putative PBP binding loops; other site 316057012289 ABC-ATPase subunit interface; other site 316057012290 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 316057012291 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 316057012292 dimer interface [polypeptide binding]; other site 316057012293 conserved gate region; other site 316057012294 putative PBP binding loops; other site 316057012295 ABC-ATPase subunit interface; other site 316057012296 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316057012297 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 316057012298 Walker A/P-loop; other site 316057012299 ATP binding site [chemical binding]; other site 316057012300 Q-loop/lid; other site 316057012301 ABC transporter signature motif; other site 316057012302 Walker B; other site 316057012303 D-loop; other site 316057012304 H-loop/switch region; other site 316057012305 TOBE domain; Region: TOBE_2; pfam08402 316057012306 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316057012307 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 316057012308 Walker A/P-loop; other site 316057012309 ATP binding site [chemical binding]; other site 316057012310 Q-loop/lid; other site 316057012311 ABC transporter signature motif; other site 316057012312 Walker B; other site 316057012313 D-loop; other site 316057012314 H-loop/switch region; other site 316057012315 TOBE domain; Region: TOBE; pfam03459 316057012316 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 316057012317 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316057012318 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316057012319 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316057012320 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 316057012321 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057012322 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057012323 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316057012324 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057012325 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057012326 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057012327 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 316057012328 PAS domain; Region: PAS_9; pfam13426 316057012329 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 316057012330 dimer interface [polypeptide binding]; other site 316057012331 phosphorylation site [posttranslational modification] 316057012332 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 316057012333 ATP binding site [chemical binding]; other site 316057012334 Mg2+ binding site [ion binding]; other site 316057012335 G-X-G motif; other site 316057012336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057012337 active site 316057012338 phosphorylation site [posttranslational modification] 316057012339 intermolecular recognition site; other site 316057012340 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 316057012341 putative binding surface; other site 316057012342 active site 316057012343 CsbD-like; Region: CsbD; pfam05532 316057012344 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316057012345 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 316057012346 dimerization interface [polypeptide binding]; other site 316057012347 NAD binding site [chemical binding]; other site 316057012348 ligand binding site [chemical binding]; other site 316057012349 catalytic site [active] 316057012350 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 316057012351 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316057012352 SlyX; Region: SlyX; pfam04102 316057012353 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057012354 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057012355 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057012356 acyl-activating enzyme (AAE) consensus motif; other site 316057012357 acyl-activating enzyme (AAE) consensus motif; other site 316057012358 putative AMP binding site [chemical binding]; other site 316057012359 putative active site [active] 316057012360 putative CoA binding site [chemical binding]; other site 316057012361 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316057012362 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 316057012363 ligand binding site [chemical binding]; other site 316057012364 flexible hinge region; other site 316057012365 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316057012366 non-specific DNA interactions [nucleotide binding]; other site 316057012367 DNA binding site [nucleotide binding] 316057012368 sequence specific DNA binding site [nucleotide binding]; other site 316057012369 putative cAMP binding site [chemical binding]; other site 316057012370 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 316057012371 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316057012372 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 316057012373 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316057012374 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316057012375 GST_N family, unknown subfamily 3; 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_3; cd03049 316057012376 putative C-terminal domain interface [polypeptide binding]; other site 316057012377 putative GSH binding site (G-site) [chemical binding]; other site 316057012378 putative dimer interface [polypeptide binding]; other site 316057012379 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 316057012380 N-terminal domain interface [polypeptide binding]; other site 316057012381 dimer interface [polypeptide binding]; other site 316057012382 putative substrate binding pocket (H-site) [chemical binding]; other site 316057012383 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316057012384 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 316057012385 DNA binding site [nucleotide binding] 316057012386 active site 316057012387 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316057012388 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 316057012389 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 316057012390 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316057012391 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 316057012392 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316057012393 Peptidase family M23; Region: Peptidase_M23; pfam01551 316057012394 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5640 316057012395 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 316057012396 Clp amino terminal domain; Region: Clp_N; pfam02861 316057012397 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 316057012398 Walker A motif; other site 316057012399 ATP binding site [chemical binding]; other site 316057012400 Walker B motif; other site 316057012401 arginine finger; other site 316057012402 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 316057012403 Walker A motif; other site 316057012404 ATP binding site [chemical binding]; other site 316057012405 Walker B motif; other site 316057012406 arginine finger; other site 316057012407 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316057012408 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 316057012409 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 316057012410 MOSC domain; Region: MOSC; pfam03473 316057012411 TIGR02594 family protein; Region: TIGR02594 316057012412 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 316057012413 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 316057012414 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 316057012415 hypothetical protein; Provisional; Region: PRK06034 316057012416 Chorismate mutase type II; Region: CM_2; pfam01817 316057012417 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 316057012418 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 316057012419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057012420 homodimer interface [polypeptide binding]; other site 316057012421 catalytic residue [active] 316057012422 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 316057012423 prephenate dehydrogenase; Validated; Region: PRK08507 316057012424 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316057012425 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 316057012426 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 316057012427 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 316057012428 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 316057012429 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 316057012430 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 316057012431 generic binding surface II; other site 316057012432 generic binding surface I; other site 316057012433 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316057012434 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316057012435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 316057012436 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 316057012437 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 316057012438 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 316057012439 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 316057012440 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 316057012441 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316057012442 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 316057012443 active site 316057012444 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 316057012445 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 316057012446 UbiA prenyltransferase family; Region: UbiA; pfam01040 316057012447 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 316057012448 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 316057012449 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 316057012450 dimer interface [polypeptide binding]; other site 316057012451 motif 1; other site 316057012452 motif 2; other site 316057012453 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 316057012454 motif 3; other site 316057012455 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 316057012456 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 316057012457 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 316057012458 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 316057012459 Ligand binding site; other site 316057012460 Putative Catalytic site; other site 316057012461 DXD motif; other site 316057012462 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 316057012463 putative active site [active] 316057012464 YdjC motif; other site 316057012465 Mg binding site [ion binding]; other site 316057012466 putative homodimer interface [polypeptide binding]; other site 316057012467 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 316057012468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057012469 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057012470 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 316057012471 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 316057012472 oligomerisation interface [polypeptide binding]; other site 316057012473 mobile loop; other site 316057012474 roof hairpin; other site 316057012475 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 316057012476 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 316057012477 ring oligomerisation interface [polypeptide binding]; other site 316057012478 ATP/Mg binding site [chemical binding]; other site 316057012479 stacking interactions; other site 316057012480 hinge regions; other site 316057012481 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 316057012482 L-lactate permease; Region: Lactate_perm; cl00701 316057012483 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 316057012484 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 316057012485 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 316057012486 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 316057012487 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 316057012488 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 316057012489 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 316057012490 Cysteine-rich domain; Region: CCG; pfam02754 316057012491 Cysteine-rich domain; Region: CCG; pfam02754 316057012492 FAD binding domain; Region: FAD_binding_4; pfam01565 316057012493 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 316057012494 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 316057012495 FAD binding domain; Region: FAD_binding_4; pfam01565 316057012496 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057012497 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057012498 Predicted membrane protein [Function unknown]; Region: COG4541 316057012499 AzlC protein; Region: AzlC; cl00570 316057012500 FtsH Extracellular; Region: FtsH_ext; pfam06480 316057012501 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 316057012502 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 316057012503 Walker A motif; other site 316057012504 ATP binding site [chemical binding]; other site 316057012505 Walker B motif; other site 316057012506 arginine finger; other site 316057012507 Peptidase family M41; Region: Peptidase_M41; pfam01434 316057012508 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 316057012509 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 316057012510 Ligand Binding Site [chemical binding]; other site 316057012511 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 316057012512 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 316057012513 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316057012514 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057012515 ligand binding site [chemical binding]; other site 316057012516 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 316057012517 PAS fold; Region: PAS_7; pfam12860 316057012518 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057012519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057012520 metal binding site [ion binding]; metal-binding site 316057012521 active site 316057012522 I-site; other site 316057012523 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 316057012524 translocation protein TolB; Provisional; Region: tolB; PRK05137 316057012525 TolB amino-terminal domain; Region: TolB_N; pfam04052 316057012526 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316057012527 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316057012528 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316057012529 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316057012530 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316057012531 TolR protein; Region: tolR; TIGR02801 316057012532 TolQ protein; Region: tolQ; TIGR02796 316057012533 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 316057012534 Uncharacterized conserved protein [Function unknown]; Region: COG2128 316057012535 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 316057012536 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 316057012537 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057012538 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057012539 WHG domain; Region: WHG; pfam13305 316057012540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 316057012541 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 316057012542 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316057012543 classical (c) SDRs; Region: SDR_c; cd05233 316057012544 NAD(P) binding site [chemical binding]; other site 316057012545 active site 316057012546 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057012547 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 316057012548 dimer interface [polypeptide binding]; other site 316057012549 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 316057012550 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057012551 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316057012552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 316057012553 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 316057012554 putative dimer interface [polypeptide binding]; other site 316057012555 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057012556 OpgC protein; Region: OpgC_C; pfam10129 316057012557 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316057012558 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 316057012559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316057012560 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 316057012561 active site 316057012562 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 316057012563 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 316057012564 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 316057012565 Walker A motif; other site 316057012566 ATP binding site [chemical binding]; other site 316057012567 Walker B motif; other site 316057012568 arginine finger; other site 316057012569 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 316057012570 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 316057012571 active site 316057012572 catalytic motif [active] 316057012573 Zn binding site [ion binding]; other site 316057012574 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 316057012575 RuvA N terminal domain; Region: RuvA_N; pfam01330 316057012576 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 316057012577 active site 316057012578 putative DNA-binding cleft [nucleotide binding]; other site 316057012579 dimer interface [polypeptide binding]; other site 316057012580 hypothetical protein; Validated; Region: PRK00110 316057012581 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316057012582 dimer interface [polypeptide binding]; other site 316057012583 putative CheW interface [polypeptide binding]; other site 316057012584 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316057012585 tyrosine decarboxylase; Region: PLN02880 316057012586 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 316057012587 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057012588 catalytic residue [active] 316057012589 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 316057012590 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 316057012591 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316057012592 putative active site [active] 316057012593 metal binding site [ion binding]; metal-binding site 316057012594 homodimer binding site [polypeptide binding]; other site 316057012595 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 316057012596 Predicted transcriptional regulator [Transcription]; Region: COG2944 316057012597 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 316057012598 non-specific DNA binding site [nucleotide binding]; other site 316057012599 salt bridge; other site 316057012600 sequence-specific DNA binding site [nucleotide binding]; other site 316057012601 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 316057012602 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 316057012603 active site 316057012604 catalytic residue [active] 316057012605 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 316057012606 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 316057012607 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316057012608 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 316057012609 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057012610 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; pfam00173 316057012611 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 316057012612 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 316057012613 FAD binding pocket [chemical binding]; other site 316057012614 FAD binding motif [chemical binding]; other site 316057012615 phosphate binding motif [ion binding]; other site 316057012616 beta-alpha-beta structure motif; other site 316057012617 NAD binding pocket [chemical binding]; other site 316057012618 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316057012619 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 316057012620 dimer interface [polypeptide binding]; other site 316057012621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057012622 catalytic residue [active] 316057012623 Methyltransferase domain; Region: Methyltransf_26; pfam13659 316057012624 S-adenosylmethionine binding site [chemical binding]; other site 316057012625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057012626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057012627 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 316057012628 dimerization interface [polypeptide binding]; other site 316057012629 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 316057012630 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316057012631 catalytic residues [active] 316057012632 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316057012633 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316057012634 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316057012635 HlyD family secretion protein; Region: HlyD_3; pfam13437 316057012636 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 316057012637 dimerization interface [polypeptide binding]; other site 316057012638 putative DNA binding site [nucleotide binding]; other site 316057012639 putative Zn2+ binding site [ion binding]; other site 316057012640 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 316057012641 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 316057012642 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 316057012643 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 316057012644 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 316057012645 [2Fe-2S] cluster binding site [ion binding]; other site 316057012646 Predicted transcriptional regulators [Transcription]; Region: COG1695 316057012647 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 316057012648 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316057012649 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 316057012650 Peptidase family M48; Region: Peptidase_M48; cl12018 316057012651 Peptidase family M48; Region: Peptidase_M48; cl12018 316057012652 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 316057012653 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316057012654 active site 316057012655 anthranilate synthase; Provisional; Region: PRK13566 316057012656 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 316057012657 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316057012658 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316057012659 glutamine binding [chemical binding]; other site 316057012660 catalytic triad [active] 316057012661 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 316057012662 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 316057012663 S-adenosylmethionine binding site [chemical binding]; other site 316057012664 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 316057012665 ABC1 family; Region: ABC1; cl17513 316057012666 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 316057012667 PhnA protein; Region: PhnA; pfam03831 316057012668 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 316057012669 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 316057012670 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 316057012671 acyl-activating enzyme (AAE) consensus motif; other site 316057012672 putative AMP binding site [chemical binding]; other site 316057012673 putative active site [active] 316057012674 putative CoA binding site [chemical binding]; other site 316057012675 TPR repeat; Region: TPR_11; pfam13414 316057012676 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 316057012677 binding surface 316057012678 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 316057012679 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057012680 classical (c) SDRs; Region: SDR_c; cd05233 316057012681 NAD(P) binding site [chemical binding]; other site 316057012682 active site 316057012683 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 316057012684 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 316057012685 DctM-like transporters; Region: DctM; pfam06808 316057012686 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316057012687 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 316057012688 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057012689 PhoD-like phosphatase; Region: PhoD; pfam09423 316057012690 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 316057012691 putative active site [active] 316057012692 putative metal binding site [ion binding]; other site 316057012693 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 316057012694 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316057012695 Response regulator receiver domain; Region: Response_reg; pfam00072 316057012696 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 316057012697 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 316057012698 putative active site [active] 316057012699 putative CoA binding site [chemical binding]; other site 316057012700 nudix motif; other site 316057012701 metal binding site [ion binding]; metal-binding site 316057012702 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 316057012703 CoenzymeA binding site [chemical binding]; other site 316057012704 subunit interaction site [polypeptide binding]; other site 316057012705 PHB binding site; other site 316057012706 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 316057012707 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 316057012708 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 316057012709 motif II; other site 316057012710 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 316057012711 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 316057012712 inhibitor-cofactor binding pocket; inhibition site 316057012713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316057012714 catalytic residue [active] 316057012715 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 316057012716 AAA domain; Region: AAA_26; pfam13500 316057012717 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 316057012718 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316057012719 catalytic residue [active] 316057012720 AAA domain; Region: AAA_33; pfam13671 316057012721 AAA domain; Region: AAA_17; pfam13207 316057012722 sensor protein QseC; Provisional; Region: PRK10337 316057012723 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 316057012724 dimer interface [polypeptide binding]; other site 316057012725 phosphorylation site [posttranslational modification] 316057012726 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 316057012727 ATP binding site [chemical binding]; other site 316057012728 Mg2+ binding site [ion binding]; other site 316057012729 G-X-G motif; other site 316057012730 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057012731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057012732 active site 316057012733 phosphorylation site [posttranslational modification] 316057012734 intermolecular recognition site; other site 316057012735 dimerization interface [polypeptide binding]; other site 316057012736 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 316057012737 DNA binding site [nucleotide binding] 316057012738 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 316057012739 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 316057012740 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 316057012741 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 316057012742 DsbD alpha interface [polypeptide binding]; other site 316057012743 catalytic residues [active] 316057012744 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 316057012745 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316057012746 catalytic residues [active] 316057012747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057012748 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057012749 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 316057012750 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 316057012751 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 316057012752 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 316057012753 Cytochrome c; Region: Cytochrom_C; cl11414 316057012754 Sulphur transport; Region: Sulf_transp; pfam04143 316057012755 Cytochrome c; Region: Cytochrom_C; pfam00034 316057012756 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 316057012757 Moco binding site; other site 316057012758 metal coordination site [ion binding]; other site 316057012759 dimerization interface [polypeptide binding]; other site 316057012760 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 316057012761 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 316057012762 active site 316057012763 metal binding site [ion binding]; metal-binding site 316057012764 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316057012765 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 316057012766 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 316057012767 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 316057012768 Cytochrome c [Energy production and conversion]; Region: COG3258 316057012769 Cytochrome c; Region: Cytochrom_C; pfam00034 316057012770 Domain of unknown function (DUF336); Region: DUF336; pfam03928 316057012771 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 316057012772 catalytic residues [active] 316057012773 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 316057012774 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 316057012775 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316057012776 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 316057012777 dimerization interface [polypeptide binding]; other site 316057012778 putative DNA binding site [nucleotide binding]; other site 316057012779 putative Zn2+ binding site [ion binding]; other site 316057012780 Predicted transporter component [General function prediction only]; Region: COG2391 316057012781 Sulphur transport; Region: Sulf_transp; pfam04143 316057012782 DsrE/DsrF-like family; Region: DrsE; pfam02635 316057012783 Outer membrane efflux protein; Region: OEP; pfam02321 316057012784 Outer membrane efflux protein; Region: OEP; pfam02321 316057012785 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 316057012786 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 316057012787 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 316057012788 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 316057012789 CopC domain; Region: CopC; pfam04234 316057012790 Copper resistance protein D; Region: CopD; cl00563 316057012791 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 316057012792 RNA polymerase sigma factor; Provisional; Region: PRK12539 316057012793 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057012794 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 316057012795 DNA binding residues [nucleotide binding] 316057012796 Maf-like protein; Region: Maf; pfam02545 316057012797 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 316057012798 active site 316057012799 dimer interface [polypeptide binding]; other site 316057012800 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 316057012801 Low molecular weight phosphatase family; Region: LMWPc; cd00115 316057012802 active site 316057012803 hypothetical protein; Provisional; Region: PRK02853 316057012804 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 316057012805 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 316057012806 NAD binding site [chemical binding]; other site 316057012807 dimerization interface [polypeptide binding]; other site 316057012808 product binding site; other site 316057012809 substrate binding site [chemical binding]; other site 316057012810 zinc binding site [ion binding]; other site 316057012811 catalytic residues [active] 316057012812 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 316057012813 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 316057012814 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 316057012815 hinge; other site 316057012816 active site 316057012817 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316057012818 SnoaL-like domain; Region: SnoaL_2; pfam12680 316057012819 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316057012820 Amidase; Region: Amidase; pfam01425 316057012821 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057012822 classical (c) SDRs; Region: SDR_c; cd05233 316057012823 NAD(P) binding site [chemical binding]; other site 316057012824 active site 316057012825 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057012826 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057012827 Walker A/P-loop; other site 316057012828 ATP binding site [chemical binding]; other site 316057012829 Q-loop/lid; other site 316057012830 ABC transporter signature motif; other site 316057012831 Walker B; other site 316057012832 D-loop; other site 316057012833 H-loop/switch region; other site 316057012834 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316057012835 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057012836 Walker A/P-loop; other site 316057012837 ATP binding site [chemical binding]; other site 316057012838 Q-loop/lid; other site 316057012839 ABC transporter signature motif; other site 316057012840 Walker B; other site 316057012841 D-loop; other site 316057012842 H-loop/switch region; other site 316057012843 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057012844 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057012845 TM-ABC transporter signature motif; other site 316057012846 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057012847 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057012848 TM-ABC transporter signature motif; other site 316057012849 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057012850 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 316057012851 putative ligand binding site [chemical binding]; other site 316057012852 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 316057012853 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316057012854 Amidase; Region: Amidase; pfam01425 316057012855 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057012856 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 316057012857 ligand binding site [chemical binding]; other site 316057012858 regulator interaction site; other site 316057012859 ANTAR domain; Region: ANTAR; pfam03861 316057012860 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 316057012861 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316057012862 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057012863 active site 316057012864 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 316057012865 enoyl-CoA hydratase; Provisional; Region: PRK06688 316057012866 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 316057012867 substrate binding site [chemical binding]; other site 316057012868 oxyanion hole (OAH) forming residues; other site 316057012869 trimer interface [polypeptide binding]; other site 316057012870 Autotransporter beta-domain; Region: Autotransporter; smart00869 316057012871 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 316057012872 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 316057012873 putative active site [active] 316057012874 putative metal binding site [ion binding]; other site 316057012875 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316057012876 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 316057012877 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 316057012878 putative active site [active] 316057012879 Zn binding site [ion binding]; other site 316057012880 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 316057012881 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 316057012882 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 316057012883 TPP-binding site; other site 316057012884 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 316057012885 PYR/PP interface [polypeptide binding]; other site 316057012886 dimer interface [polypeptide binding]; other site 316057012887 TPP binding site [chemical binding]; other site 316057012888 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316057012889 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 316057012890 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 316057012891 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 316057012892 RNA binding surface [nucleotide binding]; other site 316057012893 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 316057012894 multidrug efflux protein; Reviewed; Region: PRK01766 316057012895 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 316057012896 cation binding site [ion binding]; other site 316057012897 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 316057012898 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 316057012899 S-adenosylmethionine binding site [chemical binding]; other site 316057012900 Cell division protein ZapA; Region: ZapA; pfam05164 316057012901 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 316057012902 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 316057012903 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 316057012904 TPP-binding site [chemical binding]; other site 316057012905 dimer interface [polypeptide binding]; other site 316057012906 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 316057012907 PYR/PP interface [polypeptide binding]; other site 316057012908 dimer interface [polypeptide binding]; other site 316057012909 TPP binding site [chemical binding]; other site 316057012910 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316057012911 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 316057012912 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316057012913 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316057012914 Phosphoglycerate kinase; Region: PGK; pfam00162 316057012915 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 316057012916 substrate binding site [chemical binding]; other site 316057012917 hinge regions; other site 316057012918 ADP binding site [chemical binding]; other site 316057012919 catalytic site [active] 316057012920 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 316057012921 PemK-like protein; Region: PemK; pfam02452 316057012922 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 316057012923 active site 316057012924 intersubunit interface [polypeptide binding]; other site 316057012925 catalytic residue [active] 316057012926 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 316057012927 thiamine phosphate binding site [chemical binding]; other site 316057012928 pyrophosphate binding site [ion binding]; other site 316057012929 active site 316057012930 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316057012931 Sel1-like repeats; Region: SEL1; smart00671 316057012932 Sel1-like repeats; Region: SEL1; smart00671 316057012933 Sel1-like repeats; Region: SEL1; smart00671 316057012934 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316057012935 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 316057012936 active site 316057012937 dimerization interface [polypeptide binding]; other site 316057012938 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 316057012939 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 316057012940 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 316057012941 FeS/SAM binding site; other site 316057012942 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316057012943 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 316057012944 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 316057012945 FeS/SAM binding site; other site 316057012946 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316057012947 SnoaL-like domain; Region: SnoaL_4; pfam13577 316057012948 putative protease; Provisional; Region: PRK15447 316057012949 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316057012950 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316057012951 Peptidase family U32; Region: Peptidase_U32; pfam01136 316057012952 SCP-2 sterol transfer family; Region: SCP2; cl01225 316057012953 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 316057012954 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 316057012955 Flavoprotein; Region: Flavoprotein; pfam02441 316057012956 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 316057012957 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 316057012958 salt bridge; other site 316057012959 non-specific DNA binding site [nucleotide binding]; other site 316057012960 sequence-specific DNA binding site [nucleotide binding]; other site 316057012961 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 316057012962 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 316057012963 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 316057012964 S-adenosylmethionine binding site [chemical binding]; other site 316057012965 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 316057012966 hypothetical protein; Validated; Region: PRK09039 316057012967 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316057012968 ligand binding site [chemical binding]; other site 316057012969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316057012970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316057012971 Coenzyme A binding pocket [chemical binding]; other site 316057012972 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 316057012973 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 316057012974 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316057012975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316057012976 Walker A/P-loop; other site 316057012977 ATP binding site [chemical binding]; other site 316057012978 Q-loop/lid; other site 316057012979 ABC transporter signature motif; other site 316057012980 Walker B; other site 316057012981 D-loop; other site 316057012982 H-loop/switch region; other site 316057012983 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 316057012984 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 316057012985 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 316057012986 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 316057012987 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 316057012988 NAD(P) binding site [chemical binding]; other site 316057012989 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 316057012990 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 316057012991 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 316057012992 PAS fold; Region: PAS_3; pfam08447 316057012993 putative active site [active] 316057012994 heme pocket [chemical binding]; other site 316057012995 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316057012996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316057012997 metal binding site [ion binding]; metal-binding site 316057012998 active site 316057012999 I-site; other site 316057013000 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 316057013001 hypothetical protein; Validated; Region: PRK00228 316057013002 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 316057013003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316057013004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316057013005 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 316057013006 putative effector binding pocket; other site 316057013007 dimerization interface [polypeptide binding]; other site 316057013008 Pirin-related protein [General function prediction only]; Region: COG1741 316057013009 Pirin; Region: Pirin; pfam02678 316057013010 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 316057013011 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316057013012 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 316057013013 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316057013014 Walker A/P-loop; other site 316057013015 ATP binding site [chemical binding]; other site 316057013016 Q-loop/lid; other site 316057013017 ABC transporter signature motif; other site 316057013018 Walker B; other site 316057013019 D-loop; other site 316057013020 H-loop/switch region; other site 316057013021 Response regulator receiver domain; Region: Response_reg; pfam00072 316057013022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057013023 active site 316057013024 phosphorylation site [posttranslational modification] 316057013025 intermolecular recognition site; other site 316057013026 dimerization interface [polypeptide binding]; other site 316057013027 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 316057013028 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316057013029 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 316057013030 active site 316057013031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316057013032 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316057013033 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_22; cd08359 316057013034 putative dimer interface [polypeptide binding]; other site 316057013035 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316057013036 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316057013037 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316057013038 Transglycosylase SLT domain; Region: SLT_2; pfam13406 316057013039 murein hydrolase B; Provisional; Region: PRK10760; cl17906 316057013040 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316057013041 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 316057013042 active site 316057013043 oxyanion hole [active] 316057013044 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 316057013045 catalytic triad [active] 316057013046 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316057013047 classical (c) SDRs; Region: SDR_c; cd05233 316057013048 NAD(P) binding site [chemical binding]; other site 316057013049 active site 316057013050 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316057013051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316057013052 NAD(P) binding site [chemical binding]; other site 316057013053 active site 316057013054 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316057013055 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316057013056 Walker A/P-loop; other site 316057013057 ATP binding site [chemical binding]; other site 316057013058 Q-loop/lid; other site 316057013059 ABC transporter signature motif; other site 316057013060 Walker B; other site 316057013061 D-loop; other site 316057013062 H-loop/switch region; other site 316057013063 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316057013064 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316057013065 Walker A/P-loop; other site 316057013066 ATP binding site [chemical binding]; other site 316057013067 Q-loop/lid; other site 316057013068 ABC transporter signature motif; other site 316057013069 Walker B; other site 316057013070 D-loop; other site 316057013071 H-loop/switch region; other site 316057013072 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316057013073 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316057013074 TM-ABC transporter signature motif; other site 316057013075 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316057013076 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316057013077 TM-ABC transporter signature motif; other site 316057013078 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057013079 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 316057013080 putative ligand binding site [chemical binding]; other site 316057013081 PilZ domain; Region: PilZ; pfam07238 316057013082 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316057013083 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316057013084 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 316057013085 dimerization interface [polypeptide binding]; other site 316057013086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057013087 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 316057013088 ATP binding site [chemical binding]; other site 316057013089 Mg2+ binding site [ion binding]; other site 316057013090 G-X-G motif; other site 316057013091 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 316057013092 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 316057013093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057013094 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 316057013095 dimer interface [polypeptide binding]; other site 316057013096 phosphorylation site [posttranslational modification] 316057013097 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 316057013098 ATP binding site [chemical binding]; other site 316057013099 Mg2+ binding site [ion binding]; other site 316057013100 G-X-G motif; other site 316057013101 osmolarity response regulator; Provisional; Region: ompR; PRK09468 316057013102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057013103 active site 316057013104 phosphorylation site [posttranslational modification] 316057013105 intermolecular recognition site; other site 316057013106 dimerization interface [polypeptide binding]; other site 316057013107 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 316057013108 DNA binding site [nucleotide binding] 316057013109 RNA polymerase sigma factor; Provisional; Region: PRK12515 316057013110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316057013111 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 316057013112 DNA binding residues [nucleotide binding] 316057013113 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 316057013114 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 316057013115 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 316057013116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316057013117 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316057013118 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 316057013119 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316057013120 substrate binding pocket [chemical binding]; other site 316057013121 membrane-bound complex binding site; other site 316057013122 hinge residues; other site 316057013123 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 316057013124 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316057013125 active site 316057013126 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 316057013127 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316057013128 active site 316057013129 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 316057013130 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 316057013131 putative substrate translocation pore; other site 316057013132 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 316057013133 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316057013134 putative substrate translocation pore; other site 316057013135 Protein of unknown function (DUF938); Region: DUF938; pfam06080 316057013136 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316057013137 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 316057013138 N-terminal plug; other site 316057013139 ligand-binding site [chemical binding]; other site 316057013140 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 316057013141 putative substrate translocation pore; other site 316057013142 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 316057013143 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 316057013144 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057013145 putative ligand binding site [chemical binding]; other site 316057013146 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 316057013147 D-galactonate transporter; Region: 2A0114; TIGR00893 316057013148 putative substrate translocation pore; other site 316057013149 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316057013150 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316057013151 Walker A/P-loop; other site 316057013152 ATP binding site [chemical binding]; other site 316057013153 Q-loop/lid; other site 316057013154 ABC transporter signature motif; other site 316057013155 Walker B; other site 316057013156 D-loop; other site 316057013157 H-loop/switch region; other site 316057013158 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 316057013159 MAPEG family; Region: MAPEG; pfam01124 316057013160 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316057013161 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 316057013162 putative ligand binding site [chemical binding]; other site 316057013163 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316057013164 heat shock protein 90; Provisional; Region: PRK05218 316057013165 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 316057013166 ATP binding site [chemical binding]; other site 316057013167 Mg2+ binding site [ion binding]; other site 316057013168 G-X-G motif; other site 316057013169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316057013170 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 316057013171 ATP binding site [chemical binding]; other site 316057013172 Mg2+ binding site [ion binding]; other site 316057013173 G-X-G motif; other site 316057013174 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316057013175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 316057013176 active site 316057013177 phosphorylation site [posttranslational modification] 316057013178 intermolecular recognition site; other site 316057013179 dimerization interface [polypeptide binding]; other site 316057013180 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 316057013181 DNA binding site [nucleotide binding] 316057013182 Predicted membrane protein [Function unknown]; Region: COG3212 316057013183 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 316057013184 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 316057013185 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 316057013186 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 316057013187 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 316057013188 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 316057013189 active site 316057013190 dimer interface [polypeptide binding]; other site 316057013191 metal binding site [ion binding]; metal-binding site 316057013192 acyl-CoA synthetase; Provisional; Region: PRK13391 316057013193 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316057013194 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316057013195 acyl-activating enzyme (AAE) consensus motif; other site 316057013196 acyl-activating enzyme (AAE) consensus motif; other site 316057013197 putative AMP binding site [chemical binding]; other site 316057013198 putative active site [active] 316057013199 putative CoA binding site [chemical binding]; other site 316057013200 Transposase domain (DUF772); Region: DUF772; pfam05598 316057013201 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316057013202 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 316057013203 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 316057013204 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 316057013205 ATP binding site [chemical binding]; other site 316057013206 putative Mg++ binding site [ion binding]; other site 316057013207 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 316057013208 nucleotide binding region [chemical binding]; other site 316057013209 ATP-binding site [chemical binding]; other site 316057013210 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 316057013211 HRDC domain; Region: HRDC; pfam00570 316057013212 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 316057013213 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316057013214 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316057013215 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 316057013216 acyl-activating enzyme (AAE) consensus motif; other site 316057013217 putative AMP binding site [chemical binding]; other site 316057013218 putative active site [active] 316057013219 putative CoA binding site [chemical binding]; other site 316057013220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316057013221 active site 316057013222 phosphorylation site [posttranslational modification] 316057013223 intermolecular recognition site; other site 316057013224 dimerization interface [polypeptide binding]; other site 316057013225 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316057013226 Zn2+ binding site [ion binding]; other site 316057013227 Mg2+ binding site [ion binding]; other site 316057013228 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316057013229 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 316057013230 SLBB domain; Region: SLBB; pfam10531 316057013231 methionine sulfoxide reductase A; Provisional; Region: PRK00058 316057013232 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239