-- dump date 20140618_185433 -- class Genbank::misc_feature -- table misc_feature_note -- id note 397945000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 397945000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 397945000003 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 397945000004 Walker A motif; other site 397945000005 ATP binding site [chemical binding]; other site 397945000006 Walker B motif; other site 397945000007 arginine finger; other site 397945000008 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 397945000009 DnaA box-binding interface [nucleotide binding]; other site 397945000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 397945000011 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 397945000012 putative DNA binding surface [nucleotide binding]; other site 397945000013 dimer interface [polypeptide binding]; other site 397945000014 beta-clamp/clamp loader binding surface; other site 397945000015 beta-clamp/translesion DNA polymerase binding surface; other site 397945000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 397945000017 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 397945000018 ATP binding site [chemical binding]; other site 397945000019 Mg2+ binding site [ion binding]; other site 397945000020 G-X-G motif; other site 397945000021 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 397945000022 anchoring element; other site 397945000023 dimer interface [polypeptide binding]; other site 397945000024 ATP binding site [chemical binding]; other site 397945000025 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 397945000026 active site 397945000027 putative metal-binding site [ion binding]; other site 397945000028 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 397945000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 397945000030 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 397945000031 Divergent AAA domain; Region: AAA_4; pfam04326 397945000032 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 397945000033 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 397945000034 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 397945000035 OsmC-like protein; Region: OsmC; cl00767 397945000036 4Fe-4S binding domain; Region: Fer4; cl02805 397945000037 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 397945000038 homoserine dehydrogenase; Provisional; Region: PRK06349 397945000039 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 397945000040 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 397945000041 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 397945000042 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 397945000043 DEAD_2; Region: DEAD_2; pfam06733 397945000044 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 397945000045 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 397945000046 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 397945000047 active site 397945000048 catalytic site [active] 397945000049 substrate binding site [chemical binding]; other site 397945000050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945000051 DNA-binding site [nucleotide binding]; DNA binding site 397945000052 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 397945000053 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945000054 catalytic residue [active] 397945000055 SnoaL-like domain; Region: SnoaL_2; pfam12680 397945000056 2-isopropylmalate synthase; Validated; Region: PRK03739 397945000057 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 397945000058 active site 397945000059 catalytic residues [active] 397945000060 metal binding site [ion binding]; metal-binding site 397945000061 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 397945000062 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 397945000063 NlpC/P60 family; Region: NLPC_P60; pfam00877 397945000064 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 397945000065 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 397945000066 GAF domain; Region: GAF; pfam01590 397945000067 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 397945000068 PAS fold; Region: PAS_3; pfam08447 397945000069 putative active site [active] 397945000070 heme pocket [chemical binding]; other site 397945000071 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 397945000072 GAF domain; Region: GAF_3; pfam13492 397945000073 PAS domain S-box; Region: sensory_box; TIGR00229 397945000074 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 397945000075 putative active site [active] 397945000076 heme pocket [chemical binding]; other site 397945000077 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 397945000078 GAF domain; Region: GAF; cl17456 397945000079 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 397945000080 PAS domain; Region: PAS_9; pfam13426 397945000081 putative active site [active] 397945000082 heme pocket [chemical binding]; other site 397945000083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945000084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945000085 metal binding site [ion binding]; metal-binding site 397945000086 active site 397945000087 I-site; other site 397945000088 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 397945000089 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 397945000090 LTXXQ motif family protein; Region: LTXXQ; pfam07813 397945000091 recombination associated protein; Reviewed; Region: rdgC; PRK00321 397945000092 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 397945000093 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 397945000094 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 397945000095 beta-ketothiolase; Provisional; Region: PRK09051 397945000096 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 397945000097 dimer interface [polypeptide binding]; other site 397945000098 active site 397945000099 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 397945000100 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 397945000101 DNA binding residues [nucleotide binding] 397945000102 dimer interface [polypeptide binding]; other site 397945000103 copper binding site [ion binding]; other site 397945000104 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 397945000105 metal-binding site [ion binding] 397945000106 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 397945000107 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 397945000108 metal-binding site [ion binding] 397945000109 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945000110 Soluble P-type ATPase [General function prediction only]; Region: COG4087 397945000111 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 397945000112 dimerization interface [polypeptide binding]; other site 397945000113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000114 dimer interface [polypeptide binding]; other site 397945000115 putative CheW interface [polypeptide binding]; other site 397945000116 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 397945000117 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 397945000118 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 397945000119 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945000120 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945000121 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945000122 Outer membrane efflux protein; Region: OEP; pfam02321 397945000123 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945000124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945000125 active site 397945000126 phosphorylation site [posttranslational modification] 397945000127 intermolecular recognition site; other site 397945000128 dimerization interface [polypeptide binding]; other site 397945000129 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 397945000130 DNA binding site [nucleotide binding] 397945000131 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945000132 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 397945000133 dimer interface [polypeptide binding]; other site 397945000134 phosphorylation site [posttranslational modification] 397945000135 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 397945000136 ATP binding site [chemical binding]; other site 397945000137 Mg2+ binding site [ion binding]; other site 397945000138 G-X-G motif; other site 397945000139 NIPSNAP; Region: NIPSNAP; pfam07978 397945000140 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 397945000141 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 397945000142 Walker A/P-loop; other site 397945000143 ATP binding site [chemical binding]; other site 397945000144 Q-loop/lid; other site 397945000145 ABC transporter signature motif; other site 397945000146 Walker B; other site 397945000147 D-loop; other site 397945000148 H-loop/switch region; other site 397945000149 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945000150 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 397945000151 dimer interface [polypeptide binding]; other site 397945000152 conserved gate region; other site 397945000153 putative PBP binding loops; other site 397945000154 ABC-ATPase subunit interface; other site 397945000155 glutathionine S-transferase; Provisional; Region: PRK10542 397945000156 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 397945000157 C-terminal domain interface [polypeptide binding]; other site 397945000158 GSH binding site (G-site) [chemical binding]; other site 397945000159 dimer interface [polypeptide binding]; other site 397945000160 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945000161 dimer interface [polypeptide binding]; other site 397945000162 N-terminal domain interface [polypeptide binding]; other site 397945000163 substrate binding pocket (H-site) [chemical binding]; other site 397945000164 Flagellin N-methylase; Region: FliB; pfam03692 397945000165 Predicted flavoprotein [General function prediction only]; Region: COG0431 397945000166 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945000167 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 397945000168 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 397945000169 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 397945000170 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 397945000171 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 397945000172 LysE type translocator; Region: LysE; cl00565 397945000173 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945000174 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 397945000175 P-loop; other site 397945000176 Magnesium ion binding site [ion binding]; other site 397945000177 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 397945000178 Magnesium ion binding site [ion binding]; other site 397945000179 Serine hydrolase; Region: Ser_hydrolase; pfam06821 397945000180 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945000181 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 397945000182 ParB-like nuclease domain; Region: ParB; smart00470 397945000183 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 397945000184 Predicted membrane protein [Function unknown]; Region: COG2246 397945000185 GtrA-like protein; Region: GtrA; pfam04138 397945000186 hypothetical protein; Provisional; Region: PRK07233 397945000187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945000188 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945000189 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 397945000190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000191 NAD(P) binding site [chemical binding]; other site 397945000192 active site 397945000193 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 397945000194 classical (c) SDRs; Region: SDR_c; cd05233 397945000195 NAD(P) binding site [chemical binding]; other site 397945000196 active site 397945000197 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945000198 FAD binding domain; Region: FAD_binding_4; pfam01565 397945000199 hypothetical protein; Validated; Region: PRK08238 397945000200 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 397945000201 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 397945000202 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 397945000203 Carboxylesterase family; Region: COesterase; pfam00135 397945000204 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 397945000205 substrate binding pocket [chemical binding]; other site 397945000206 catalytic triad [active] 397945000207 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 397945000208 active site 397945000209 SAM binding site [chemical binding]; other site 397945000210 homodimer interface [polypeptide binding]; other site 397945000211 Precorrin-8X methylmutase; Region: CbiC; pfam02570 397945000212 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 397945000213 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 397945000214 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 397945000215 active site 397945000216 putative homodimer interface [polypeptide binding]; other site 397945000217 SAM binding site [chemical binding]; other site 397945000218 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 397945000219 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 397945000220 S-adenosylmethionine binding site [chemical binding]; other site 397945000221 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 397945000222 active site 397945000223 SAM binding site [chemical binding]; other site 397945000224 homodimer interface [polypeptide binding]; other site 397945000225 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 397945000226 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 397945000227 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 397945000228 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 397945000229 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 397945000230 active site 397945000231 SAM binding site [chemical binding]; other site 397945000232 homodimer interface [polypeptide binding]; other site 397945000233 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 397945000234 dimer interface [polypeptide binding]; other site 397945000235 [2Fe-2S] cluster binding site [ion binding]; other site 397945000236 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 397945000237 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 397945000238 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945000239 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 397945000240 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945000241 putative substrate translocation pore; other site 397945000242 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 397945000243 HdeA/HdeB family; Region: HdeA; pfam06411 397945000244 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 397945000245 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 397945000246 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945000247 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945000248 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945000249 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945000250 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945000251 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945000252 YCII-related domain; Region: YCII; cl00999 397945000253 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945000254 FAD binding domain; Region: FAD_binding_4; pfam01565 397945000255 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 397945000256 Ca2+ binding site [ion binding]; other site 397945000257 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 397945000258 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 397945000259 CoenzymeA binding site [chemical binding]; other site 397945000260 subunit interaction site [polypeptide binding]; other site 397945000261 PHB binding site; other site 397945000262 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 397945000263 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 397945000264 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 397945000265 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 397945000266 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 397945000267 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 397945000268 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945000269 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 397945000270 dimerization interface [polypeptide binding]; other site 397945000271 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945000272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000273 dimer interface [polypeptide binding]; other site 397945000274 putative CheW interface [polypeptide binding]; other site 397945000275 B12 binding domain; Region: B12-binding; pfam02310 397945000276 B12 binding site [chemical binding]; other site 397945000277 Radical SAM superfamily; Region: Radical_SAM; pfam04055 397945000278 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 397945000279 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 397945000280 trimer interface [polypeptide binding]; other site 397945000281 putative metal binding site [ion binding]; other site 397945000282 Uncharacterized conserved protein [Function unknown]; Region: COG3603 397945000283 Family description; Region: ACT_7; pfam13840 397945000284 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945000285 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945000286 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 397945000287 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 397945000288 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 397945000289 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945000290 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 397945000291 Walker A/P-loop; other site 397945000292 ATP binding site [chemical binding]; other site 397945000293 Q-loop/lid; other site 397945000294 ABC transporter signature motif; other site 397945000295 Walker B; other site 397945000296 D-loop; other site 397945000297 H-loop/switch region; other site 397945000298 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 397945000299 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 397945000300 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 397945000301 dimer interface [polypeptide binding]; other site 397945000302 conserved gate region; other site 397945000303 putative PBP binding loops; other site 397945000304 ABC-ATPase subunit interface; other site 397945000305 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 397945000306 dimer interface [polypeptide binding]; other site 397945000307 conserved gate region; other site 397945000308 putative PBP binding loops; other site 397945000309 ABC-ATPase subunit interface; other site 397945000310 hypothetical protein; Provisional; Region: PRK09126 397945000311 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 397945000312 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 397945000313 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 397945000314 dimer interface [polypeptide binding]; other site 397945000315 NADP binding site [chemical binding]; other site 397945000316 catalytic residues [active] 397945000317 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 397945000318 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945000319 putative DNA binding site [nucleotide binding]; other site 397945000320 putative Zn2+ binding site [ion binding]; other site 397945000321 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945000322 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945000323 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 397945000324 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 397945000325 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 397945000326 acyl-activating enzyme (AAE) consensus motif; other site 397945000327 putative AMP binding site [chemical binding]; other site 397945000328 putative active site [active] 397945000329 putative CoA binding site [chemical binding]; other site 397945000330 Arginase family; Region: Arginase; cd09989 397945000331 active site 397945000332 Mn binding site [ion binding]; other site 397945000333 oligomer interface [polypeptide binding]; other site 397945000334 ornithine cyclodeaminase; Validated; Region: PRK07589 397945000335 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 397945000336 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945000337 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 397945000338 putative DNA binding site [nucleotide binding]; other site 397945000339 putative Zn2+ binding site [ion binding]; other site 397945000340 AsnC family; Region: AsnC_trans_reg; pfam01037 397945000341 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 397945000342 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 397945000343 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 397945000344 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 397945000345 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 397945000346 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 397945000347 Switch I; other site 397945000348 Switch II; other site 397945000349 cell division topological specificity factor MinE; Provisional; Region: PRK13989 397945000350 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 397945000351 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945000352 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 397945000353 putative active site [active] 397945000354 Zn binding site [ion binding]; other site 397945000355 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945000356 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 397945000357 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945000358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945000359 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945000360 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 397945000361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000362 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 397945000363 dimerization interface [polypeptide binding]; other site 397945000364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945000365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945000366 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 397945000367 Ligand Binding Site [chemical binding]; other site 397945000368 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 397945000369 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945000370 active site 397945000371 metal binding site [ion binding]; metal-binding site 397945000372 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 397945000373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000374 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 397945000375 substrate binding pocket [chemical binding]; other site 397945000376 dimerization interface [polypeptide binding]; other site 397945000377 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_GTP; cd00819 397945000378 active site 397945000379 substrate-binding site [chemical binding]; other site 397945000380 metal-binding site [ion binding] 397945000381 GTP binding site [chemical binding]; other site 397945000382 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 397945000383 Ligand Binding Site [chemical binding]; other site 397945000384 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 397945000385 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 397945000386 threonine dehydratase; Provisional; Region: PRK07334 397945000387 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 397945000388 tetramer interface [polypeptide binding]; other site 397945000389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945000390 catalytic residue [active] 397945000391 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 397945000392 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945000393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945000394 active site 397945000395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000396 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945000397 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 397945000398 dimerization interface [polypeptide binding]; other site 397945000399 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 397945000400 Cupin domain; Region: Cupin_2; pfam07883 397945000401 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 397945000402 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945000403 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 397945000404 maleylacetoacetate isomerase; Region: maiA; TIGR01262 397945000405 C-terminal domain interface [polypeptide binding]; other site 397945000406 GSH binding site (G-site) [chemical binding]; other site 397945000407 putative dimer interface [polypeptide binding]; other site 397945000408 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 397945000409 dimer interface [polypeptide binding]; other site 397945000410 N-terminal domain interface [polypeptide binding]; other site 397945000411 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 397945000412 benzoate transport; Region: 2A0115; TIGR00895 397945000413 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 397945000414 putative substrate translocation pore; other site 397945000415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945000416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945000417 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 397945000418 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 397945000419 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 397945000420 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 397945000421 homodimer interface [polypeptide binding]; other site 397945000422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945000423 catalytic residue [active] 397945000424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 397945000425 YheO-like PAS domain; Region: PAS_6; pfam08348 397945000426 HTH domain; Region: HTH_22; pfam13309 397945000427 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 397945000428 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 397945000429 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 397945000430 Helix-turn-helix domain; Region: HTH_17; pfam12728 397945000431 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945000432 putative active site [active] 397945000433 catalytic site [active] 397945000434 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 397945000435 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 397945000436 ATP binding site [chemical binding]; other site 397945000437 putative Mg++ binding site [ion binding]; other site 397945000438 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 397945000439 nucleotide binding region [chemical binding]; other site 397945000440 ATP-binding site [chemical binding]; other site 397945000441 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 397945000442 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 397945000443 DNA methylase; Region: N6_N4_Mtase; pfam01555 397945000444 Macro domain, Poa1p_like family. The macro domain is 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...; Region: Macro_Poa1p_like; cd02901 397945000445 ADP-ribose binding site [chemical binding]; other site 397945000446 Restriction endonuclease [Defense mechanisms]; Region: COG3587 397945000447 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 397945000448 ATP binding site [chemical binding]; other site 397945000449 putative Mg++ binding site [ion binding]; other site 397945000450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000452 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 397945000453 substrate binding pocket [chemical binding]; other site 397945000454 dimerization interface [polypeptide binding]; other site 397945000455 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 397945000456 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 397945000457 catalytic loop [active] 397945000458 iron binding site [ion binding]; other site 397945000459 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 397945000460 FAD binding pocket [chemical binding]; other site 397945000461 FAD binding motif [chemical binding]; other site 397945000462 phosphate binding motif [ion binding]; other site 397945000463 beta-alpha-beta structure motif; other site 397945000464 NAD binding pocket [chemical binding]; other site 397945000465 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 397945000466 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 397945000467 iron-sulfur cluster [ion binding]; other site 397945000468 [2Fe-2S] cluster binding site [ion binding]; other site 397945000469 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 397945000470 putative alpha subunit interface [polypeptide binding]; other site 397945000471 putative active site [active] 397945000472 putative substrate binding site [chemical binding]; other site 397945000473 Fe binding site [ion binding]; other site 397945000474 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 397945000475 inter-subunit interface; other site 397945000476 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 397945000477 [2Fe-2S] cluster binding site [ion binding]; other site 397945000478 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945000479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000480 dimer interface [polypeptide binding]; other site 397945000481 putative CheW interface [polypeptide binding]; other site 397945000482 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945000483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945000484 active site 397945000485 phosphorylation site [posttranslational modification] 397945000486 intermolecular recognition site; other site 397945000487 dimerization interface [polypeptide binding]; other site 397945000488 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 397945000489 Walker A motif; other site 397945000490 ATP binding site [chemical binding]; other site 397945000491 Walker B motif; other site 397945000492 arginine finger; other site 397945000493 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945000494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945000495 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 397945000496 dimer interface [polypeptide binding]; other site 397945000497 phosphorylation site [posttranslational modification] 397945000498 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 397945000499 ATP binding site [chemical binding]; other site 397945000500 Mg2+ binding site [ion binding]; other site 397945000501 G-X-G motif; other site 397945000502 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 397945000503 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 397945000504 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 397945000505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000506 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 397945000507 putative dimerization interface [polypeptide binding]; other site 397945000508 putative substrate binding pocket [chemical binding]; other site 397945000509 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945000510 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945000511 active site 397945000512 Cupin domain; Region: Cupin_2; pfam07883 397945000513 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945000514 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945000515 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945000516 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945000517 Integrase core domain; Region: rve; pfam00665 397945000518 Integrase core domain; Region: rve_3; pfam13683 397945000519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945000520 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 397945000521 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 397945000522 ATP binding site [chemical binding]; other site 397945000523 putative Mg++ binding site [ion binding]; other site 397945000524 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 397945000525 nucleotide binding region [chemical binding]; other site 397945000526 ATP-binding site [chemical binding]; other site 397945000527 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 397945000528 HRDC domain; Region: HRDC; pfam00570 397945000529 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 397945000530 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 397945000531 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 397945000532 DEAD_2; Region: DEAD_2; pfam06733 397945000533 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 397945000534 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 397945000535 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 397945000536 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 397945000537 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 397945000538 NAD(P) binding site [chemical binding]; other site 397945000539 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 397945000540 amidase; Provisional; Region: PRK07869 397945000541 Amidase; Region: Amidase; cl11426 397945000542 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945000543 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 397945000544 N-terminal plug; other site 397945000545 ligand-binding site [chemical binding]; other site 397945000546 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 397945000547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000549 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 397945000550 dimerization interface [polypeptide binding]; other site 397945000551 Predicted membrane protein [Function unknown]; Region: COG4125 397945000552 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 397945000553 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 397945000554 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 397945000555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000556 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 397945000557 dimerization interface [polypeptide binding]; other site 397945000558 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 397945000559 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 397945000560 octamer interface [polypeptide binding]; other site 397945000561 active site 397945000562 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945000563 Papain-like cysteine protease AvrRpt2; Region: Peptidase_C70; pfam12385 397945000564 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000565 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000566 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 397945000567 dimerization interface [polypeptide binding]; other site 397945000568 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945000569 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 397945000570 substrate binding pocket [chemical binding]; other site 397945000571 membrane-bound complex binding site; other site 397945000572 hinge residues; other site 397945000573 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 397945000574 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 397945000575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945000576 catalytic residue [active] 397945000577 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 397945000578 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945000579 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 397945000580 Walker A/P-loop; other site 397945000581 ATP binding site [chemical binding]; other site 397945000582 Q-loop/lid; other site 397945000583 ABC transporter signature motif; other site 397945000584 Walker B; other site 397945000585 D-loop; other site 397945000586 H-loop/switch region; other site 397945000587 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 397945000588 dimer interface [polypeptide binding]; other site 397945000589 conserved gate region; other site 397945000590 putative PBP binding loops; other site 397945000591 ABC-ATPase subunit interface; other site 397945000592 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 397945000593 dimer interface [polypeptide binding]; other site 397945000594 conserved gate region; other site 397945000595 putative PBP binding loops; other site 397945000596 ABC-ATPase subunit interface; other site 397945000597 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945000598 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 397945000599 substrate binding pocket [chemical binding]; other site 397945000600 membrane-bound complex binding site; other site 397945000601 hinge residues; other site 397945000602 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945000603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945000604 DNA-binding site [nucleotide binding]; DNA binding site 397945000605 FCD domain; Region: FCD; pfam07729 397945000606 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 397945000607 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 397945000608 substrate binding pocket [chemical binding]; other site 397945000609 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 397945000610 B12 binding site [chemical binding]; other site 397945000611 cobalt ligand [ion binding]; other site 397945000612 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 397945000613 trehalase; Provisional; Region: treA; PRK13272 397945000614 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 397945000615 Phosphoesterase family; Region: Phosphoesterase; pfam04185 397945000616 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945000617 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945000618 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945000619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945000620 metal binding site [ion binding]; metal-binding site 397945000621 active site 397945000622 I-site; other site 397945000623 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 397945000624 Protein of unknown function DUF72; Region: DUF72; pfam01904 397945000625 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 397945000626 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 397945000627 FAD binding pocket [chemical binding]; other site 397945000628 FAD binding motif [chemical binding]; other site 397945000629 phosphate binding motif [ion binding]; other site 397945000630 beta-alpha-beta structure motif; other site 397945000631 NAD binding pocket [chemical binding]; other site 397945000632 transcriptional regulator; Provisional; Region: PRK10632 397945000633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000634 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 397945000635 putative effector binding pocket; other site 397945000636 putative dimerization interface [polypeptide binding]; other site 397945000637 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945000638 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945000639 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000640 dimer interface [polypeptide binding]; other site 397945000641 putative CheW interface [polypeptide binding]; other site 397945000642 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945000643 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 397945000644 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 397945000645 dimer interface [polypeptide binding]; other site 397945000646 phosphorylation site [posttranslational modification] 397945000647 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 397945000648 ATP binding site [chemical binding]; other site 397945000649 Mg2+ binding site [ion binding]; other site 397945000650 G-X-G motif; other site 397945000651 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945000652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945000653 active site 397945000654 phosphorylation site [posttranslational modification] 397945000655 intermolecular recognition site; other site 397945000656 dimerization interface [polypeptide binding]; other site 397945000657 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 397945000658 Walker A motif; other site 397945000659 ATP binding site [chemical binding]; other site 397945000660 Walker B motif; other site 397945000661 arginine finger; other site 397945000662 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945000663 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 397945000664 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 397945000665 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 397945000666 Walker A motif; other site 397945000667 ATP binding site [chemical binding]; other site 397945000668 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 397945000669 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 397945000670 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 397945000671 Nitrogen regulatory protein P-II; Region: P-II; smart00938 397945000672 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945000673 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 397945000674 PAAR motif; Region: PAAR_motif; pfam05488 397945000675 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945000676 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945000677 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945000678 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 397945000679 FAD binding domain; Region: FAD_binding_4; pfam01565 397945000680 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 397945000681 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 397945000682 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 397945000683 Cysteine-rich domain; Region: CCG; pfam02754 397945000684 Cysteine-rich domain; Region: CCG; pfam02754 397945000685 ProQ/FINO family; Region: ProQ; smart00945 397945000686 putative RNA binding sites [nucleotide binding]; other site 397945000687 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945000688 Predicted transcriptional regulator [Transcription]; Region: COG2378 397945000689 HTH domain; Region: HTH_11; pfam08279 397945000690 WYL domain; Region: WYL; pfam13280 397945000691 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 397945000692 catalytic residues [active] 397945000693 dimer interface [polypeptide binding]; other site 397945000694 EamA-like transporter family; Region: EamA; pfam00892 397945000695 lysophospholipid transporter LplT; Provisional; Region: PRK11195 397945000696 alanine racemase; Reviewed; Region: dadX; PRK03646 397945000697 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 397945000698 active site 397945000699 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945000700 substrate binding site [chemical binding]; other site 397945000701 catalytic residues [active] 397945000702 dimer interface [polypeptide binding]; other site 397945000703 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 397945000704 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 397945000705 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 397945000706 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 397945000707 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945000708 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945000709 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 397945000710 putative DNA binding site [nucleotide binding]; other site 397945000711 putative Zn2+ binding site [ion binding]; other site 397945000712 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945000713 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945000714 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 397945000715 C-terminal domain interface [polypeptide binding]; other site 397945000716 GSH binding site (G-site) [chemical binding]; other site 397945000717 dimer interface [polypeptide binding]; other site 397945000718 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945000719 N-terminal domain interface [polypeptide binding]; other site 397945000720 dimer interface [polypeptide binding]; other site 397945000721 substrate binding pocket (H-site) [chemical binding]; other site 397945000722 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 397945000723 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 397945000724 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 397945000725 DNA repair protein RadA; Provisional; Region: PRK11823 397945000726 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 397945000727 Walker A motif/ATP binding site; other site 397945000728 ATP binding site [chemical binding]; other site 397945000729 Walker B motif; other site 397945000730 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 397945000731 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 397945000732 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 397945000733 homodimer interface [polypeptide binding]; other site 397945000734 substrate-cofactor binding pocket; other site 397945000735 catalytic residue [active] 397945000736 Zinc-finger domain; Region: zf-CHCC; cl01821 397945000737 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 397945000738 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 397945000739 O-Antigen ligase; Region: Wzy_C; pfam04932 397945000740 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 397945000741 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 397945000742 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945000743 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 397945000744 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 397945000745 active site 397945000746 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 397945000747 Nitronate monooxygenase; Region: NMO; pfam03060 397945000748 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 397945000749 FMN binding site [chemical binding]; other site 397945000750 substrate binding site [chemical binding]; other site 397945000751 putative catalytic residue [active] 397945000752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000754 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 397945000755 dimerization interface [polypeptide binding]; other site 397945000756 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 397945000757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945000758 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 397945000759 dimerization interface [polypeptide binding]; other site 397945000760 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 397945000761 dimer interface [polypeptide binding]; other site 397945000762 phosphorylation site [posttranslational modification] 397945000763 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 397945000764 ATP binding site [chemical binding]; other site 397945000765 G-X-G motif; other site 397945000766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945000767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945000768 active site 397945000769 phosphorylation site [posttranslational modification] 397945000770 intermolecular recognition site; other site 397945000771 dimerization interface [polypeptide binding]; other site 397945000772 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 397945000773 DNA binding site [nucleotide binding] 397945000774 AmpG-like permease; Region: 2A0125; TIGR00901 397945000775 Cupin domain; Region: Cupin_2; cl17218 397945000776 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945000777 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 397945000778 EamA-like transporter family; Region: EamA; pfam00892 397945000779 Peptidase family M48; Region: Peptidase_M48; cl12018 397945000780 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 397945000781 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 397945000782 transmembrane helices; other site 397945000783 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 397945000784 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945000785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 397945000786 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 397945000787 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945000788 GAF domain; Region: GAF; pfam01590 397945000789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000791 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 397945000792 dimerization interface [polypeptide binding]; other site 397945000793 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 397945000794 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 397945000795 putative substrate translocation pore; other site 397945000796 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 397945000797 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945000798 active site 397945000799 catalytic tetrad [active] 397945000800 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 397945000801 putative active site [active] 397945000802 putative catalytic site [active] 397945000803 putative DNA binding site [nucleotide binding]; other site 397945000804 putative phosphate binding site [ion binding]; other site 397945000805 metal binding site A [ion binding]; metal-binding site 397945000806 putative AP binding site [nucleotide binding]; other site 397945000807 putative metal binding site B [ion binding]; other site 397945000808 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945000809 active site 397945000810 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 397945000811 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 397945000812 GatB domain; Region: GatB_Yqey; smart00845 397945000813 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 397945000814 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 397945000815 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 397945000816 rod shape-determining protein MreB; Provisional; Region: PRK13927 397945000817 MreB and similar proteins; Region: MreB_like; cd10225 397945000818 nucleotide binding site [chemical binding]; other site 397945000819 Mg binding site [ion binding]; other site 397945000820 putative protofilament interaction site [polypeptide binding]; other site 397945000821 RodZ interaction site [polypeptide binding]; other site 397945000822 rod shape-determining protein MreC; Provisional; Region: PRK13922 397945000823 rod shape-determining protein MreC; Region: MreC; pfam04085 397945000824 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 397945000825 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 397945000826 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 397945000827 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 397945000828 EamA-like transporter family; Region: EamA; pfam00892 397945000829 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945000830 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 397945000831 Walker A/P-loop; other site 397945000832 ATP binding site [chemical binding]; other site 397945000833 Q-loop/lid; other site 397945000834 ABC transporter signature motif; other site 397945000835 Walker B; other site 397945000836 D-loop; other site 397945000837 H-loop/switch region; other site 397945000838 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 397945000839 dimer interface [polypeptide binding]; other site 397945000840 conserved gate region; other site 397945000841 putative PBP binding loops; other site 397945000842 ABC-ATPase subunit interface; other site 397945000843 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945000844 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 397945000845 substrate binding pocket [chemical binding]; other site 397945000846 membrane-bound complex binding site; other site 397945000847 hinge residues; other site 397945000848 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 397945000849 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 397945000850 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 397945000851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945000853 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 397945000854 putative dimerization interface [polypeptide binding]; other site 397945000855 hypothetical protein; Provisional; Region: PRK10621 397945000856 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 397945000857 choline dehydrogenase; Validated; Region: PRK02106 397945000858 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 397945000859 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 397945000860 Permease; Region: Permease; pfam02405 397945000861 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 397945000862 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 397945000863 Walker A/P-loop; other site 397945000864 ATP binding site [chemical binding]; other site 397945000865 Q-loop/lid; other site 397945000866 ABC transporter signature motif; other site 397945000867 Walker B; other site 397945000868 D-loop; other site 397945000869 H-loop/switch region; other site 397945000870 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 397945000871 mce related protein; Region: MCE; pfam02470 397945000872 Protein of unknown function (DUF330); Region: DUF330; cl01135 397945000873 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 397945000874 Active Sites [active] 397945000875 hypothetical protein; Provisional; Region: PRK10428 397945000876 Hemerythrin; Region: Hemerythrin; cd12107 397945000877 Fe binding site [ion binding]; other site 397945000878 inner membrane protein; Provisional; Region: PRK11715 397945000879 sensory histidine kinase CreC; Provisional; Region: PRK11100 397945000880 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 397945000881 dimer interface [polypeptide binding]; other site 397945000882 phosphorylation site [posttranslational modification] 397945000883 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 397945000884 ATP binding site [chemical binding]; other site 397945000885 Mg2+ binding site [ion binding]; other site 397945000886 G-X-G motif; other site 397945000887 DNA-binding response regulator CreB; Provisional; Region: PRK11083 397945000888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945000889 active site 397945000890 phosphorylation site [posttranslational modification] 397945000891 intermolecular recognition site; other site 397945000892 dimerization interface [polypeptide binding]; other site 397945000893 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 397945000894 DNA binding site [nucleotide binding] 397945000895 MarC family integral membrane protein; Region: MarC; cl00919 397945000896 short chain dehydrogenase; Provisional; Region: PRK06123 397945000897 classical (c) SDRs; Region: SDR_c; cd05233 397945000898 NAD(P) binding site [chemical binding]; other site 397945000899 active site 397945000900 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 397945000901 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 397945000902 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 397945000903 putative substrate translocation pore; other site 397945000904 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 397945000905 Outer membrane efflux protein; Region: OEP; pfam02321 397945000906 Outer membrane efflux protein; Region: OEP; pfam02321 397945000907 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945000908 MarR family; Region: MarR_2; pfam12802 397945000909 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 397945000910 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 397945000911 catalytic triad [active] 397945000912 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 397945000913 oligomer interface [polypeptide binding]; other site 397945000914 metal binding site [ion binding]; metal-binding site 397945000915 metal binding site [ion binding]; metal-binding site 397945000916 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 397945000917 putative Cl binding site [ion binding]; other site 397945000918 aspartate ring; other site 397945000919 basic sphincter; other site 397945000920 hydrophobic gate; other site 397945000921 periplasmic entrance; other site 397945000922 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 397945000923 dimer interface [polypeptide binding]; other site 397945000924 allosteric magnesium binding site [ion binding]; other site 397945000925 active site 397945000926 aspartate-rich active site metal binding site; other site 397945000927 Schiff base residues; other site 397945000928 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 397945000929 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 397945000930 dimer interface [polypeptide binding]; other site 397945000931 [2Fe-2S] cluster binding site [ion binding]; other site 397945000932 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 397945000933 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 397945000934 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 397945000935 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 397945000936 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 397945000937 S17 interaction site [polypeptide binding]; other site 397945000938 S8 interaction site; other site 397945000939 16S rRNA interaction site [nucleotide binding]; other site 397945000940 streptomycin interaction site [chemical binding]; other site 397945000941 23S rRNA interaction site [nucleotide binding]; other site 397945000942 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 397945000943 30S ribosomal protein S7; Validated; Region: PRK05302 397945000944 elongation factor G; Reviewed; Region: PRK00007 397945000945 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 397945000946 G1 box; other site 397945000947 putative GEF interaction site [polypeptide binding]; other site 397945000948 GTP/Mg2+ binding site [chemical binding]; other site 397945000949 Switch I region; other site 397945000950 G2 box; other site 397945000951 G3 box; other site 397945000952 Switch II region; other site 397945000953 G4 box; other site 397945000954 G5 box; other site 397945000955 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 397945000956 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 397945000957 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 397945000958 elongation factor Tu; Reviewed; Region: PRK00049 397945000959 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 397945000960 G1 box; other site 397945000961 GEF interaction site [polypeptide binding]; other site 397945000962 GTP/Mg2+ binding site [chemical binding]; other site 397945000963 Switch I region; other site 397945000964 G2 box; other site 397945000965 G3 box; other site 397945000966 Switch II region; other site 397945000967 G4 box; other site 397945000968 G5 box; other site 397945000969 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 397945000970 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 397945000971 Antibiotic Binding Site [chemical binding]; other site 397945000972 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 397945000973 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 397945000974 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 397945000975 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 397945000976 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 397945000977 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 397945000978 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 397945000979 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 397945000980 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 397945000981 putative translocon binding site; other site 397945000982 protein-rRNA interface [nucleotide binding]; other site 397945000983 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 397945000984 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 397945000985 G-X-X-G motif; other site 397945000986 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 397945000987 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 397945000988 23S rRNA interface [nucleotide binding]; other site 397945000989 5S rRNA interface [nucleotide binding]; other site 397945000990 putative antibiotic binding site [chemical binding]; other site 397945000991 L25 interface [polypeptide binding]; other site 397945000992 L27 interface [polypeptide binding]; other site 397945000993 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 397945000994 23S rRNA interface [nucleotide binding]; other site 397945000995 putative translocon interaction site; other site 397945000996 signal recognition particle (SRP54) interaction site; other site 397945000997 L23 interface [polypeptide binding]; other site 397945000998 trigger factor interaction site; other site 397945000999 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 397945001000 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 397945001001 catalytic triad [active] 397945001002 dimer interface [polypeptide binding]; other site 397945001003 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 397945001004 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945001005 Coenzyme A binding pocket [chemical binding]; other site 397945001006 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 397945001007 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 397945001008 catalytic residues [active] 397945001009 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; cl00025 397945001010 active pocket/dimerization site; other site 397945001011 active site 397945001012 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 397945001013 dimerization domain swap beta strand [polypeptide binding]; other site 397945001014 regulatory protein interface [polypeptide binding]; other site 397945001015 active site 397945001016 regulatory phosphorylation site [posttranslational modification]; other site 397945001017 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 397945001018 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 397945001019 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 397945001020 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 397945001021 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 397945001022 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 397945001023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945001024 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 397945001025 sensor protein KdpD; Provisional; Region: PRK10490 397945001026 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 397945001027 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 397945001028 GAF domain; Region: GAF_3; pfam13492 397945001029 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 397945001030 dimer interface [polypeptide binding]; other site 397945001031 phosphorylation site [posttranslational modification] 397945001032 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 397945001033 ATP binding site [chemical binding]; other site 397945001034 Mg2+ binding site [ion binding]; other site 397945001035 G-X-G motif; other site 397945001036 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 397945001037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945001038 active site 397945001039 phosphorylation site [posttranslational modification] 397945001040 intermolecular recognition site; other site 397945001041 dimerization interface [polypeptide binding]; other site 397945001042 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 397945001043 DNA binding site [nucleotide binding] 397945001044 lipoyl synthase; Provisional; Region: PRK05481 397945001045 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 397945001046 FeS/SAM binding site; other site 397945001047 lipoate-protein ligase B; Provisional; Region: PRK14346 397945001048 Protein of unknown function (DUF493); Region: DUF493; cl01102 397945001049 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 397945001050 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 397945001051 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 397945001052 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 397945001053 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 397945001054 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 397945001055 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 397945001056 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 397945001057 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 397945001058 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 397945001059 beta subunit interaction interface [polypeptide binding]; other site 397945001060 Walker A motif; other site 397945001061 ATP binding site [chemical binding]; other site 397945001062 Walker B motif; other site 397945001063 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 397945001064 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 397945001065 core domain interface [polypeptide binding]; other site 397945001066 delta subunit interface [polypeptide binding]; other site 397945001067 epsilon subunit interface [polypeptide binding]; other site 397945001068 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 397945001069 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 397945001070 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 397945001071 alpha subunit interaction interface [polypeptide binding]; other site 397945001072 Walker A motif; other site 397945001073 ATP binding site [chemical binding]; other site 397945001074 Walker B motif; other site 397945001075 inhibitor binding site; inhibition site 397945001076 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 397945001077 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 397945001078 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 397945001079 gamma subunit interface [polypeptide binding]; other site 397945001080 epsilon subunit interface [polypeptide binding]; other site 397945001081 LBP interface [polypeptide binding]; other site 397945001082 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 397945001083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945001084 ATP-dependent DNA ligase; Validated; Region: PRK09247 397945001085 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 397945001086 active site 397945001087 DNA binding site [nucleotide binding] 397945001088 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 397945001089 DNA binding site [nucleotide binding] 397945001090 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 397945001091 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 397945001092 ATP binding site [chemical binding]; other site 397945001093 putative Mg++ binding site [ion binding]; other site 397945001094 nucleotide binding region [chemical binding]; other site 397945001095 helicase superfamily c-terminal domain; Region: HELICc; smart00490 397945001096 ATP-binding site [chemical binding]; other site 397945001097 DEAD/H associated; Region: DEAD_assoc; pfam08494 397945001098 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945001099 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 397945001100 putative active site [active] 397945001101 putative metal binding site [ion binding]; other site 397945001102 Repair protein; Region: Repair_PSII; pfam04536 397945001103 Repair protein; Region: Repair_PSII; pfam04536 397945001104 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 397945001105 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 397945001106 SnoaL-like domain; Region: SnoaL_3; pfam13474 397945001107 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 397945001108 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 397945001109 Cytochrome c; Region: Cytochrom_C; cl11414 397945001110 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 397945001111 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 397945001112 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 397945001113 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945001114 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 397945001115 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945001116 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945001117 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 397945001118 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945001119 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 397945001120 Helix-turn-helix domain; Region: HTH_17; cl17695 397945001121 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 397945001122 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 397945001123 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945001124 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945001125 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945001126 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945001127 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 397945001128 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 397945001129 active site 397945001130 DNA binding site [nucleotide binding] 397945001131 Int/Topo IB signature motif; other site 397945001132 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 397945001133 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 397945001134 putative active site [active] 397945001135 putative dimer interface [polypeptide binding]; other site 397945001136 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 397945001137 putative substrate translocation pore; other site 397945001138 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 397945001139 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 397945001140 active site 1 [active] 397945001141 dimer interface [polypeptide binding]; other site 397945001142 hexamer interface [polypeptide binding]; other site 397945001143 active site 2 [active] 397945001144 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 397945001145 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945001146 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 397945001147 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001148 dimer interface [polypeptide binding]; other site 397945001149 putative CheW interface [polypeptide binding]; other site 397945001150 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 397945001151 active site 397945001152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001153 transcriptional activator TtdR; Provisional; Region: PRK09801 397945001154 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 397945001155 putative effector binding pocket; other site 397945001156 dimerization interface [polypeptide binding]; other site 397945001157 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 397945001158 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 397945001159 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 397945001160 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 397945001161 Trp docking motif [polypeptide binding]; other site 397945001162 putative active site [active] 397945001163 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 397945001164 psiF repeat; Region: PsiF_repeat; pfam07769 397945001165 psiF repeat; Region: PsiF_repeat; pfam07769 397945001166 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 397945001167 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 397945001168 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945001169 active site 397945001170 HIGH motif; other site 397945001171 nucleotide binding site [chemical binding]; other site 397945001172 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 397945001173 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 397945001174 tRNA binding surface [nucleotide binding]; other site 397945001175 anticodon binding site; other site 397945001176 Sporulation related domain; Region: SPOR; pfam05036 397945001177 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 397945001178 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 397945001179 catalytic residues [active] 397945001180 hinge region; other site 397945001181 alpha helical domain; other site 397945001182 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 397945001183 OstA-like protein; Region: OstA; pfam03968 397945001184 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 397945001185 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 397945001186 Walker A/P-loop; other site 397945001187 ATP binding site [chemical binding]; other site 397945001188 Q-loop/lid; other site 397945001189 ABC transporter signature motif; other site 397945001190 Walker B; other site 397945001191 D-loop; other site 397945001192 H-loop/switch region; other site 397945001193 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 397945001194 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 397945001195 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 397945001196 TspO/MBR family; Region: TspO_MBR; pfam03073 397945001197 Cache domain; Region: Cache_1; pfam02743 397945001198 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 397945001199 dimerization interface [polypeptide binding]; other site 397945001200 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001201 dimer interface [polypeptide binding]; other site 397945001202 putative CheW interface [polypeptide binding]; other site 397945001203 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 397945001204 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 397945001205 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 397945001206 PIN domain; Region: PIN_3; pfam13470 397945001207 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 397945001208 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 397945001209 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 397945001210 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 397945001211 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 397945001212 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 397945001213 Sulfate transporter family; Region: Sulfate_transp; pfam00916 397945001214 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 397945001215 CHASE3 domain; Region: CHASE3; pfam05227 397945001216 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945001217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001218 dimer interface [polypeptide binding]; other site 397945001219 putative CheW interface [polypeptide binding]; other site 397945001220 Competence-damaged protein; Region: CinA; pfam02464 397945001221 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 397945001222 tetramer interfaces [polypeptide binding]; other site 397945001223 binuclear metal-binding site [ion binding]; other site 397945001224 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 397945001225 conserved hypothetical protein; Region: TIGR02231 397945001226 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 397945001227 thiamine monophosphate kinase; Provisional; Region: PRK05731 397945001228 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 397945001229 ATP binding site [chemical binding]; other site 397945001230 dimerization interface [polypeptide binding]; other site 397945001231 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 397945001232 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 397945001233 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945001234 Site-specific recombinase; Region: SpecificRecomb; pfam10136 397945001235 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 397945001236 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 397945001237 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 397945001238 substrate binding site [chemical binding]; other site 397945001239 hexamer interface [polypeptide binding]; other site 397945001240 metal binding site [ion binding]; metal-binding site 397945001241 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 397945001242 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 397945001243 motif II; other site 397945001244 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 397945001245 anthranilate synthase component I; Provisional; Region: PRK13565 397945001246 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 397945001247 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 397945001248 Chorismate mutase type II; Region: CM_2; smart00830 397945001249 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945001250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945001251 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 397945001252 DNA binding site [nucleotide binding] 397945001253 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 397945001254 type III secretion system protein YscR; Provisional; Region: PRK12797 397945001255 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 397945001256 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 397945001257 Type III secretion protein (HpaP); Region: HpaP; pfam09483 397945001258 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 397945001259 FHIPEP family; Region: FHIPEP; pfam00771 397945001260 type III secretion system protein HrcU; Validated; Region: PRK09108 397945001261 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 397945001262 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 397945001263 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 397945001264 type III secretion system ATPase; Provisional; Region: PRK09099 397945001265 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 397945001266 Walker A motif; other site 397945001267 ATP binding site [chemical binding]; other site 397945001268 Walker B motif; other site 397945001269 type III secretion system protein; Reviewed; Region: PRK06937 397945001270 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 397945001271 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 397945001272 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 397945001273 Bacterial type III secretion protein (HrpB2); Region: HrpB2; pfam09487 397945001274 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 397945001275 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 397945001276 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945001277 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945001278 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945001279 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 397945001280 S-adenosylmethionine binding site [chemical binding]; other site 397945001281 Methyltransferase domain; Region: Methyltransf_31; pfam13847 397945001282 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 397945001283 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 397945001284 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 397945001285 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945001286 catalytic residue [active] 397945001287 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 397945001288 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945001289 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945001290 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945001291 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945001292 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945001293 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 397945001294 PAAR motif; Region: PAAR_motif; pfam05488 397945001295 integrase; Provisional; Region: PRK09692 397945001296 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 397945001297 active site 397945001298 Int/Topo IB signature motif; other site 397945001299 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945001300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945001301 Integrase core domain; Region: rve; pfam00665 397945001302 Integrase core domain; Region: rve_3; pfam13683 397945001303 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 397945001304 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 397945001305 Active Sites [active] 397945001306 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 397945001307 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 397945001308 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 397945001309 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 397945001310 MPN+ (JAMM) motif; other site 397945001311 Zinc-binding site [ion binding]; other site 397945001312 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945001313 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 397945001314 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 397945001315 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 397945001316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001317 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 397945001318 dimerization interface [polypeptide binding]; other site 397945001319 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945001320 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945001321 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945001322 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945001323 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945001324 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 397945001325 PAAR motif; Region: PAAR_motif; pfam05488 397945001326 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945001327 RHS Repeat; Region: RHS_repeat; pfam05593 397945001328 RHS Repeat; Region: RHS_repeat; pfam05593 397945001329 RHS Repeat; Region: RHS_repeat; pfam05593 397945001330 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945001331 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945001332 RHS Repeat; Region: RHS_repeat; pfam05593 397945001333 RHS protein; Region: RHS; pfam03527 397945001334 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945001335 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945001336 AP2 domain; Region: AP2; pfam00847 397945001337 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 397945001338 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 397945001339 catalytic residues [active] 397945001340 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 397945001341 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 397945001342 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 397945001343 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 397945001344 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 397945001345 Protein of unknown function (DUF904); Region: DUF904; pfam06005 397945001346 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 397945001347 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 397945001348 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 397945001349 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 397945001350 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 397945001351 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 397945001352 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 397945001353 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 397945001354 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 397945001355 catalytic residues [active] 397945001356 catalytic nucleophile [active] 397945001357 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945001358 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945001359 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945001360 Synaptic Site I dimer interface [polypeptide binding]; other site 397945001361 DNA binding site [nucleotide binding] 397945001362 Recombinase; Region: Recombinase; pfam07508 397945001363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945001364 Transposase; Region: HTH_Tnp_1; pfam01527 397945001365 putative transposase OrfB; Reviewed; Region: PHA02517 397945001366 HTH-like domain; Region: HTH_21; pfam13276 397945001367 Integrase core domain; Region: rve; pfam00665 397945001368 Integrase core domain; Region: rve_3; pfam13683 397945001369 Uncharacterized conserved protein [Function unknown]; Region: COG4544 397945001370 DNA Polymerase Y-family; Region: PolY_like; cd03468 397945001371 DNA binding site [nucleotide binding] 397945001372 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 397945001373 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 397945001374 putative active site [active] 397945001375 putative PHP Thumb interface [polypeptide binding]; other site 397945001376 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 397945001377 putative transposase OrfB; Reviewed; Region: PHA02517 397945001378 HTH-like domain; Region: HTH_21; pfam13276 397945001379 Integrase core domain; Region: rve; pfam00665 397945001380 Integrase core domain; Region: rve_3; pfam13683 397945001381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945001382 Transposase; Region: HTH_Tnp_1; pfam01527 397945001383 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945001384 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945001385 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945001386 AAA domain; Region: AAA_21; pfam13304 397945001387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 397945001388 ABC transporter signature motif; other site 397945001389 Walker B; other site 397945001390 D-loop; other site 397945001391 H-loop/switch region; other site 397945001392 SEFIR domain; Region: SEFIR; pfam08357 397945001393 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 397945001394 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 397945001395 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 397945001396 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 397945001397 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 397945001398 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 397945001399 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 397945001400 MASE1; Region: MASE1; cl17823 397945001401 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 397945001402 Protein of unknown function (DUF1629); Region: DUF1629; pfam07791 397945001403 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945001404 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 397945001405 nucleotide binding region [chemical binding]; other site 397945001406 ATP-binding site [chemical binding]; other site 397945001407 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 397945001408 S-adenosylmethionine binding site [chemical binding]; other site 397945001409 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 397945001410 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 397945001411 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 397945001412 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 397945001413 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945001414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945001415 Integrase core domain; Region: rve; pfam00665 397945001416 Integrase core domain; Region: rve_3; pfam13683 397945001417 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 397945001418 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 397945001419 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 397945001420 ATP binding site [chemical binding]; other site 397945001421 Mg2+ binding site [ion binding]; other site 397945001422 G-X-G motif; other site 397945001423 HNH endonuclease; Region: HNH_5; pfam14279 397945001424 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 397945001425 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 397945001426 cofactor binding site; other site 397945001427 DNA binding site [nucleotide binding] 397945001428 substrate interaction site [chemical binding]; other site 397945001429 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 397945001430 DNA topoisomerase III; Provisional; Region: PRK07726 397945001431 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 397945001432 active site 397945001433 putative interdomain interaction site [polypeptide binding]; other site 397945001434 putative metal-binding site [ion binding]; other site 397945001435 putative nucleotide binding site [chemical binding]; other site 397945001436 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 397945001437 domain I; other site 397945001438 DNA binding groove [nucleotide binding] 397945001439 phosphate binding site [ion binding]; other site 397945001440 domain II; other site 397945001441 domain III; other site 397945001442 nucleotide binding site [chemical binding]; other site 397945001443 catalytic site [active] 397945001444 domain IV; other site 397945001445 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 397945001446 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 397945001447 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 397945001448 ssDNA binding site [nucleotide binding]; other site 397945001449 dimer interface [polypeptide binding]; other site 397945001450 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945001451 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 397945001452 DNA methylase; Region: N6_N4_Mtase; pfam01555 397945001453 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 397945001454 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 397945001455 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 397945001456 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 397945001457 ParB-like nuclease domain; Region: ParBc; pfam02195 397945001458 AAA domain; Region: AAA_31; pfam13614 397945001459 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 397945001460 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 397945001461 Magnesium ion binding site [ion binding]; other site 397945001462 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 397945001463 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 397945001464 Putative helicase; Region: TraI_2; pfam07514 397945001465 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 397945001466 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 397945001467 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 397945001468 EamA-like transporter family; Region: EamA; pfam00892 397945001469 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 397945001470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001471 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 397945001472 dimerization interface [polypeptide binding]; other site 397945001473 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 397945001474 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945001475 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 397945001476 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 397945001477 homotrimer interaction site [polypeptide binding]; other site 397945001478 putative active site [active] 397945001479 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945001480 PLD-like domain; Region: PLDc_2; pfam13091 397945001481 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 397945001482 homodimer interface [polypeptide binding]; other site 397945001483 putative active site [active] 397945001484 catalytic site [active] 397945001485 Predicted helicase [General function prediction only]; Region: COG4889 397945001486 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 397945001487 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 397945001488 ATP binding site [chemical binding]; other site 397945001489 putative Mg++ binding site [ion binding]; other site 397945001490 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 397945001491 ATP-binding site [chemical binding]; other site 397945001492 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 397945001493 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 397945001494 putative active site [active] 397945001495 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 397945001496 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 397945001497 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 397945001498 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 397945001499 glutamine binding [chemical binding]; other site 397945001500 catalytic triad [active] 397945001501 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 397945001502 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 397945001503 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 397945001504 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 397945001505 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 397945001506 active site 397945001507 phosphate binding site [ion binding]; other site 397945001508 ribulose/triose binding site [chemical binding]; other site 397945001509 substrate (anthranilate) binding pocket [chemical binding]; other site 397945001510 product (indole) binding pocket [chemical binding]; other site 397945001511 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 397945001512 ligand binding site [chemical binding]; other site 397945001513 active site 397945001514 UGI interface [polypeptide binding]; other site 397945001515 catalytic site [active] 397945001516 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 397945001517 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945001518 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 397945001519 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 397945001520 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 397945001521 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945001522 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945001523 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 397945001524 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 397945001525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945001526 Zn2+ binding site [ion binding]; other site 397945001527 Mg2+ binding site [ion binding]; other site 397945001528 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 397945001529 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 397945001530 generic binding surface II; other site 397945001531 ssDNA binding site; other site 397945001532 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 397945001533 ATP binding site [chemical binding]; other site 397945001534 putative Mg++ binding site [ion binding]; other site 397945001535 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 397945001536 nucleotide binding region [chemical binding]; other site 397945001537 ATP-binding site [chemical binding]; other site 397945001538 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 397945001539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001540 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 397945001541 dimerization interface [polypeptide binding]; other site 397945001542 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 397945001543 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 397945001544 dimerization interface [polypeptide binding]; other site 397945001545 DPS ferroxidase diiron center [ion binding]; other site 397945001546 ion pore; other site 397945001547 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 397945001548 UbiA prenyltransferase family; Region: UbiA; pfam01040 397945001549 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 397945001550 putative active site [active] 397945001551 YdjC motif; other site 397945001552 Mg binding site [ion binding]; other site 397945001553 putative homodimer interface [polypeptide binding]; other site 397945001554 Predicted membrane protein [Function unknown]; Region: COG2246 397945001555 GtrA-like protein; Region: GtrA; pfam04138 397945001556 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 397945001557 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 397945001558 Ligand binding site; other site 397945001559 Putative Catalytic site; other site 397945001560 DXD motif; other site 397945001561 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 397945001562 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 397945001563 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 397945001564 glycerol kinase; Provisional; Region: glpK; PRK00047 397945001565 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 397945001566 N- and C-terminal domain interface [polypeptide binding]; other site 397945001567 active site 397945001568 MgATP binding site [chemical binding]; other site 397945001569 catalytic site [active] 397945001570 metal binding site [ion binding]; metal-binding site 397945001571 glycerol binding site [chemical binding]; other site 397945001572 homotetramer interface [polypeptide binding]; other site 397945001573 homodimer interface [polypeptide binding]; other site 397945001574 FBP binding site [chemical binding]; other site 397945001575 protein IIAGlc interface [polypeptide binding]; other site 397945001576 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 397945001577 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 397945001578 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 397945001579 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 397945001580 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 397945001581 Walker A/P-loop; other site 397945001582 ATP binding site [chemical binding]; other site 397945001583 Q-loop/lid; other site 397945001584 ABC transporter signature motif; other site 397945001585 Walker B; other site 397945001586 D-loop; other site 397945001587 H-loop/switch region; other site 397945001588 TOBE domain; Region: TOBE_2; pfam08402 397945001589 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 397945001590 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 397945001591 Walker A/P-loop; other site 397945001592 ATP binding site [chemical binding]; other site 397945001593 Q-loop/lid; other site 397945001594 ABC transporter signature motif; other site 397945001595 Walker B; other site 397945001596 D-loop; other site 397945001597 H-loop/switch region; other site 397945001598 TOBE domain; Region: TOBE_2; pfam08402 397945001599 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 397945001600 dimer interface [polypeptide binding]; other site 397945001601 conserved gate region; other site 397945001602 putative PBP binding loops; other site 397945001603 ABC-ATPase subunit interface; other site 397945001604 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 397945001605 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 397945001606 dimer interface [polypeptide binding]; other site 397945001607 conserved gate region; other site 397945001608 putative PBP binding loops; other site 397945001609 ABC-ATPase subunit interface; other site 397945001610 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 397945001611 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945001612 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 397945001613 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 397945001614 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 397945001615 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 397945001616 RNA binding site [nucleotide binding]; other site 397945001617 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 397945001618 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 397945001619 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 397945001620 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 397945001621 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 397945001622 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 397945001623 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 397945001624 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 397945001625 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 397945001626 5S rRNA interface [nucleotide binding]; other site 397945001627 23S rRNA interface [nucleotide binding]; other site 397945001628 L5 interface [polypeptide binding]; other site 397945001629 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 397945001630 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 397945001631 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 397945001632 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 397945001633 23S rRNA binding site [nucleotide binding]; other site 397945001634 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 397945001635 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 397945001636 SecY translocase; Region: SecY; pfam00344 397945001637 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 397945001638 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 397945001639 30S ribosomal protein S13; Region: bact_S13; TIGR03631 397945001640 30S ribosomal protein S11; Validated; Region: PRK05309 397945001641 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 397945001642 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 397945001643 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 397945001644 RNA binding surface [nucleotide binding]; other site 397945001645 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 397945001646 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 397945001647 alphaNTD homodimer interface [polypeptide binding]; other site 397945001648 alphaNTD - beta interaction site [polypeptide binding]; other site 397945001649 alphaNTD - beta' interaction site [polypeptide binding]; other site 397945001650 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 397945001651 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 397945001652 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 397945001653 putative chaperone; Provisional; Region: PRK11678 397945001654 nucleotide binding site [chemical binding]; other site 397945001655 putative NEF/HSP70 interaction site [polypeptide binding]; other site 397945001656 SBD interface [polypeptide binding]; other site 397945001657 Predicted methyltransferases [General function prediction only]; Region: COG0313 397945001658 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 397945001659 putative SAM binding site [chemical binding]; other site 397945001660 putative homodimer interface [polypeptide binding]; other site 397945001661 hypothetical protein; Provisional; Region: PRK14673 397945001662 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 397945001663 dimer interface [polypeptide binding]; other site 397945001664 active site 397945001665 outer membrane lipoprotein; Provisional; Region: PRK11023 397945001666 BON domain; Region: BON; pfam04972 397945001667 BON domain; Region: BON; pfam04972 397945001668 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 397945001669 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 397945001670 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945001671 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945001672 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945001673 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 397945001674 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 397945001675 Walker A motif; other site 397945001676 ATP binding site [chemical binding]; other site 397945001677 Walker B motif; other site 397945001678 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945001679 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 397945001680 ligand binding site [chemical binding]; other site 397945001681 flexible hinge region; other site 397945001682 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 397945001683 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 397945001684 Walker A motif; other site 397945001685 ATP binding site [chemical binding]; other site 397945001686 Walker B motif; other site 397945001687 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 397945001688 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945001689 catalytic residue [active] 397945001690 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 397945001691 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 397945001692 tetramer interface [polypeptide binding]; other site 397945001693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945001694 catalytic residue [active] 397945001695 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 397945001696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945001697 catalytic residue [active] 397945001698 Protein of unknown function (DUF445); Region: DUF445; pfam04286 397945001699 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 397945001700 FAD binding domain; Region: FAD_binding_4; pfam01565 397945001701 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945001702 Family description; Region: UvrD_C_2; pfam13538 397945001703 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945001704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001705 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945001706 dimerization interface [polypeptide binding]; other site 397945001707 substrate binding pocket [chemical binding]; other site 397945001708 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 397945001709 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 397945001710 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 397945001711 putative active site [active] 397945001712 putative substrate binding site [chemical binding]; other site 397945001713 putative cosubstrate binding site; other site 397945001714 catalytic site [active] 397945001715 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 397945001716 PAS domain; Region: PAS_9; pfam13426 397945001717 putative active site [active] 397945001718 heme pocket [chemical binding]; other site 397945001719 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945001720 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001721 metal binding site [ion binding]; metal-binding site 397945001722 active site 397945001723 I-site; other site 397945001724 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 397945001725 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 397945001726 MgtC family; Region: MgtC; pfam02308 397945001727 Protein of unknown function, DUF399; Region: DUF399; pfam04187 397945001728 transcriptional regulator NarL; Provisional; Region: PRK10651 397945001729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945001730 active site 397945001731 phosphorylation site [posttranslational modification] 397945001732 intermolecular recognition site; other site 397945001733 dimerization interface [polypeptide binding]; other site 397945001734 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 397945001735 DNA binding residues [nucleotide binding] 397945001736 dimerization interface [polypeptide binding]; other site 397945001737 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945001738 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; cl17904 397945001739 Methyltransferase domain; Region: Methyltransf_31; pfam13847 397945001740 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 397945001741 S-adenosylmethionine binding site [chemical binding]; other site 397945001742 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945001743 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 397945001744 N-terminal plug; other site 397945001745 ligand-binding site [chemical binding]; other site 397945001746 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945001747 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 397945001748 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 397945001749 putative substrate translocation pore; other site 397945001750 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 397945001751 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 397945001752 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 397945001753 [4Fe-4S] binding site [ion binding]; other site 397945001754 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 397945001755 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 397945001756 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 397945001757 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 397945001758 molybdopterin cofactor binding site; other site 397945001759 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 397945001760 4Fe-4S binding domain; Region: Fer4; cl02805 397945001761 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 397945001762 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 397945001763 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 397945001764 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 397945001765 active site clefts [active] 397945001766 zinc binding site [ion binding]; other site 397945001767 dimer interface [polypeptide binding]; other site 397945001768 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 397945001769 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 397945001770 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 397945001771 protein-splicing catalytic site; other site 397945001772 thioester formation/cholesterol transfer; other site 397945001773 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 397945001774 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 397945001775 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 397945001776 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 397945001777 Hemerythrin-like domain; Region: Hr-like; cd12108 397945001778 Fe binding site [ion binding]; other site 397945001779 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 397945001780 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 397945001781 active site 397945001782 Int/Topo IB signature motif; other site 397945001783 DNA binding site [nucleotide binding] 397945001784 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 397945001785 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945001786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945001787 Integrase core domain; Region: rve; pfam00665 397945001788 Integrase core domain; Region: rve_3; pfam13683 397945001789 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945001790 Part of AAA domain; Region: AAA_19; pfam13245 397945001791 Family description; Region: UvrD_C_2; pfam13538 397945001792 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 397945001793 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945001794 Walker A/P-loop; other site 397945001795 ATP binding site [chemical binding]; other site 397945001796 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 397945001797 putative active site [active] 397945001798 putative metal-binding site [ion binding]; other site 397945001799 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 397945001800 Domain of unknown function (DUF932); Region: DUF932; pfam06067 397945001801 ParB-like nuclease domain; Region: ParBc; pfam02195 397945001802 Uncharacterized conserved protein [Function unknown]; Region: COG5489 397945001803 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 397945001804 non-specific DNA binding site [nucleotide binding]; other site 397945001805 salt bridge; other site 397945001806 sequence-specific DNA binding site [nucleotide binding]; other site 397945001807 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 397945001808 Uncharacterized conserved protein [Function unknown]; Region: COG5419 397945001809 Helix-turn-helix domain; Region: HTH_17; pfam12728 397945001810 Replication initiator protein A; Region: RPA; cl17860 397945001811 ParA-like protein; Provisional; Region: PHA02518 397945001812 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 397945001813 P-loop; other site 397945001814 Magnesium ion binding site [ion binding]; other site 397945001815 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 397945001816 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 397945001817 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 397945001818 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 397945001819 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 397945001820 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945001821 Transposase; Region: HTH_Tnp_1; pfam01527 397945001822 putative transposase OrfB; Reviewed; Region: PHA02517 397945001823 HTH-like domain; Region: HTH_21; pfam13276 397945001824 Integrase core domain; Region: rve; pfam00665 397945001825 Integrase core domain; Region: rve_3; pfam13683 397945001826 Winged helix-turn helix; Region: HTH_29; pfam13551 397945001827 Homeodomain-like domain; Region: HTH_32; pfam13565 397945001828 Integrase core domain; Region: rve; pfam00665 397945001829 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945001830 Integrase core domain; Region: rve_3; pfam13683 397945001831 Cupin domain; Region: Cupin_2; pfam07883 397945001832 Helix-turn-helix domain; Region: HTH_18; pfam12833 397945001833 D-cysteine desulfhydrase; Validated; Region: PRK03910 397945001834 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 397945001835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945001836 catalytic residue [active] 397945001837 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945001838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001839 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 397945001840 dimerization interface [polypeptide binding]; other site 397945001841 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 397945001842 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 397945001843 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 397945001844 putative substrate translocation pore; other site 397945001845 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; cl17904 397945001846 putative transposase OrfB; Reviewed; Region: PHA02517 397945001847 HTH-like domain; Region: HTH_21; pfam13276 397945001848 Integrase core domain; Region: rve; pfam00665 397945001849 Integrase core domain; Region: rve_3; pfam13683 397945001850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945001851 Transposase; Region: HTH_Tnp_1; pfam01527 397945001852 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 397945001853 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945001854 Transposase; Region: HTH_Tnp_1; pfam01527 397945001855 putative transposase OrfB; Reviewed; Region: PHA02517 397945001856 HTH-like domain; Region: HTH_21; pfam13276 397945001857 Integrase core domain; Region: rve; pfam00665 397945001858 Integrase core domain; Region: rve_3; pfam13683 397945001859 putative transposase OrfB; Reviewed; Region: PHA02517 397945001860 HTH-like domain; Region: HTH_21; pfam13276 397945001861 Integrase core domain; Region: rve; pfam00665 397945001862 Integrase core domain; Region: rve_3; pfam13683 397945001863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945001864 Transposase; Region: HTH_Tnp_1; pfam01527 397945001865 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 397945001866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 397945001867 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 397945001868 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 397945001869 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 397945001870 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 397945001871 Transposase; Region: HTH_Tnp_1; cl17663 397945001872 hypothetical protein; Provisional; Region: PRK09739 397945001873 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945001874 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 397945001875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945001876 Coenzyme A binding pocket [chemical binding]; other site 397945001877 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 397945001878 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945001879 active site 397945001880 catalytic tetrad [active] 397945001881 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945001882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001883 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 397945001884 dimerization interface [polypeptide binding]; other site 397945001885 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 397945001886 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945001887 putative substrate translocation pore; other site 397945001888 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 397945001889 Winged helix-turn helix; Region: HTH_29; pfam13551 397945001890 Homeodomain-like domain; Region: HTH_32; pfam13565 397945001891 Integrase core domain; Region: rve; pfam00665 397945001892 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945001893 Integrase core domain; Region: rve_3; pfam13683 397945001894 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 397945001895 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 397945001896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001897 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 397945001898 dimerization interface [polypeptide binding]; other site 397945001899 substrate binding pocket [chemical binding]; other site 397945001900 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 397945001901 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 397945001902 Walker A motif; other site 397945001903 ATP binding site [chemical binding]; other site 397945001904 Walker B motif; other site 397945001905 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 397945001906 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 397945001907 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 397945001908 ATP binding site [chemical binding]; other site 397945001909 Walker A motif; other site 397945001910 hexamer interface [polypeptide binding]; other site 397945001911 Walker B motif; other site 397945001912 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 397945001913 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 397945001914 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 397945001915 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 397945001916 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 397945001917 Walker A motif; other site 397945001918 ATP binding site [chemical binding]; other site 397945001919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945001920 Walker B; other site 397945001921 D-loop; other site 397945001922 H-loop/switch region; other site 397945001923 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 397945001924 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 397945001925 conjugal transfer protein TrbL; Provisional; Region: PRK13875 397945001926 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 397945001927 conjugal transfer protein TrbF; Provisional; Region: PRK13872 397945001928 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 397945001929 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 397945001930 VirB7 interaction site; other site 397945001931 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 397945001932 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 397945001933 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 397945001934 Cupin domain; Region: Cupin_2; pfam07883 397945001935 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 397945001936 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 397945001937 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 397945001938 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 397945001939 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945001940 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945001941 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 397945001942 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945001943 TraB family; Region: TraB; pfam01963 397945001944 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945001945 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 397945001946 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 397945001947 potential catalytic triad [active] 397945001948 conserved cys residue [active] 397945001949 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945001950 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001951 metal binding site [ion binding]; metal-binding site 397945001952 active site 397945001953 I-site; other site 397945001954 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 397945001955 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 397945001956 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945001957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001958 metal binding site [ion binding]; metal-binding site 397945001959 active site 397945001960 I-site; other site 397945001961 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 397945001962 DctM-like transporters; Region: DctM; pfam06808 397945001963 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 397945001964 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 397945001965 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945001966 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 397945001967 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945001968 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 397945001969 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945001970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001971 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 397945001972 dimerization interface [polypeptide binding]; other site 397945001973 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 397945001974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945001975 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 397945001976 dimerization interface [polypeptide binding]; other site 397945001977 Pirin-related protein [General function prediction only]; Region: COG1741 397945001978 Pirin; Region: Pirin; pfam02678 397945001979 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 397945001980 catalytic triad [active] 397945001981 dimer interface [polypeptide binding]; other site 397945001982 Isochorismatase family; Region: Isochorismatase; pfam00857 397945001983 conserved cis-peptide bond; other site 397945001984 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 397945001985 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 397945001986 active site 397945001987 Transmembrane secretion effector; Region: MFS_3; pfam05977 397945001988 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 397945001989 Predicted ATPase [General function prediction only]; Region: COG4637 397945001990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945001991 Walker A/P-loop; other site 397945001992 ATP binding site [chemical binding]; other site 397945001993 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945001994 ABC transporter signature motif; other site 397945001995 Walker B; other site 397945001996 D-loop; other site 397945001997 H-loop/switch region; other site 397945001998 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 397945001999 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 397945002000 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 397945002001 putative [4Fe-4S] binding site [ion binding]; other site 397945002002 putative molybdopterin cofactor binding site [chemical binding]; other site 397945002003 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 397945002004 putative molybdopterin cofactor binding site; other site 397945002005 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945002006 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 397945002007 putative ligand binding site [chemical binding]; other site 397945002008 acetylornithine deacetylase; Provisional; Region: PRK07522 397945002009 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 397945002010 metal binding site [ion binding]; metal-binding site 397945002011 putative dimer interface [polypeptide binding]; other site 397945002012 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945002013 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945002014 metal binding site [ion binding]; metal-binding site 397945002015 putative dimer interface [polypeptide binding]; other site 397945002016 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 397945002017 putative active site [active] 397945002018 Zn binding site [ion binding]; other site 397945002019 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945002020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002022 dimer interface [polypeptide binding]; other site 397945002023 putative CheW interface [polypeptide binding]; other site 397945002024 Acyl CoA binding protein; Region: ACBP; pfam00887 397945002025 acyl-CoA binding pocket [chemical binding]; other site 397945002026 CoA binding site [chemical binding]; other site 397945002027 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 397945002028 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 397945002029 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 397945002030 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 397945002031 S-adenosylmethionine binding site [chemical binding]; other site 397945002032 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 397945002033 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945002034 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945002035 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 397945002036 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945002037 acyl-activating enzyme (AAE) consensus motif; other site 397945002038 active site 397945002039 AMP binding site [chemical binding]; other site 397945002040 CoA binding site [chemical binding]; other site 397945002041 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945002042 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945002043 Walker A/P-loop; other site 397945002044 ATP binding site [chemical binding]; other site 397945002045 Q-loop/lid; other site 397945002046 ABC transporter signature motif; other site 397945002047 Walker B; other site 397945002048 D-loop; other site 397945002049 H-loop/switch region; other site 397945002050 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 397945002051 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945002052 putative ligand binding site [chemical binding]; other site 397945002053 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945002054 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 397945002055 TM-ABC transporter signature motif; other site 397945002056 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945002057 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 397945002058 TM-ABC transporter signature motif; other site 397945002059 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945002060 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945002061 Walker A/P-loop; other site 397945002062 ATP binding site [chemical binding]; other site 397945002063 Q-loop/lid; other site 397945002064 ABC transporter signature motif; other site 397945002065 Walker B; other site 397945002066 D-loop; other site 397945002067 H-loop/switch region; other site 397945002068 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 397945002069 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 397945002070 acyl-activating enzyme (AAE) consensus motif; other site 397945002071 putative AMP binding site [chemical binding]; other site 397945002072 putative active site [active] 397945002073 putative CoA binding site [chemical binding]; other site 397945002074 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 397945002075 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 397945002076 Walker A motif; other site 397945002077 ATP binding site [chemical binding]; other site 397945002078 Walker B motif; other site 397945002079 arginine finger; other site 397945002080 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 397945002081 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 397945002082 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 397945002083 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945002084 RNA binding surface [nucleotide binding]; other site 397945002085 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 397945002086 active site 397945002087 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 397945002088 hypothetical protein; Provisional; Region: PRK07538 397945002089 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 397945002090 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945002091 MarR family; Region: MarR_2; pfam12802 397945002092 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945002093 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 397945002094 Chromate transporter; Region: Chromate_transp; pfam02417 397945002095 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945002096 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 397945002097 C-terminal domain interface [polypeptide binding]; other site 397945002098 GSH binding site (G-site) [chemical binding]; other site 397945002099 dimer interface [polypeptide binding]; other site 397945002100 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 397945002101 dimer interface [polypeptide binding]; other site 397945002102 N-terminal domain interface [polypeptide binding]; other site 397945002103 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 397945002104 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 397945002105 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 397945002106 Protein of unknown function, DUF484; Region: DUF484; cl17449 397945002107 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 397945002108 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 397945002109 active site 397945002110 DNA binding site [nucleotide binding] 397945002111 Int/Topo IB signature motif; other site 397945002112 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 397945002113 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945002114 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 397945002115 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002116 dimer interface [polypeptide binding]; other site 397945002117 putative CheW interface [polypeptide binding]; other site 397945002118 PUA domain; Region: PUA; cl00607 397945002119 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 397945002120 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 397945002121 putative RNA binding site [nucleotide binding]; other site 397945002122 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 397945002123 S-adenosylmethionine binding site [chemical binding]; other site 397945002124 PAS fold; Region: PAS_7; pfam12860 397945002125 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 397945002126 PAS fold; Region: PAS_7; pfam12860 397945002127 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945002128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945002129 metal binding site [ion binding]; metal-binding site 397945002130 active site 397945002131 I-site; other site 397945002132 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 397945002133 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 397945002134 P-loop, Walker A motif; other site 397945002135 Base recognition motif; other site 397945002136 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 397945002137 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 397945002138 STAS domain; Region: STAS_2; pfam13466 397945002139 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 397945002140 active site 397945002141 HslU subunit interaction site [polypeptide binding]; other site 397945002142 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 397945002143 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 397945002144 Walker A motif; other site 397945002145 ATP binding site [chemical binding]; other site 397945002146 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 397945002147 Walker B motif; other site 397945002148 arginine finger; other site 397945002149 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 397945002150 cell division protein MraZ; Reviewed; Region: PRK00326 397945002151 MraZ protein; Region: MraZ; pfam02381 397945002152 MraZ protein; Region: MraZ; pfam02381 397945002153 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 397945002154 MraW methylase family; Region: Methyltransf_5; cl17771 397945002155 Cell division protein FtsL; Region: FtsL; pfam04999 397945002156 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 397945002157 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 397945002158 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 397945002159 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 397945002160 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002163 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 397945002164 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002165 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002166 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002167 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 397945002168 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 397945002169 Mg++ binding site [ion binding]; other site 397945002170 putative catalytic motif [active] 397945002171 putative substrate binding site [chemical binding]; other site 397945002172 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 397945002173 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002174 cell division protein FtsW; Region: ftsW; TIGR02614 397945002175 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 397945002176 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 397945002177 active site 397945002178 homodimer interface [polypeptide binding]; other site 397945002179 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 397945002180 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002181 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002182 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002183 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 397945002184 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 397945002185 ATP-grasp domain; Region: ATP-grasp_4; cl17255 397945002186 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 397945002187 Cell division protein FtsQ; Region: FtsQ; pfam03799 397945002188 cell division protein FtsA; Region: ftsA; TIGR01174 397945002189 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 397945002190 nucleotide binding site [chemical binding]; other site 397945002191 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 397945002192 Cell division protein FtsA; Region: FtsA; pfam14450 397945002193 cell division protein FtsZ; Validated; Region: PRK09330 397945002194 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 397945002195 nucleotide binding site [chemical binding]; other site 397945002196 SulA interaction site; other site 397945002197 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 397945002198 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 397945002199 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 397945002200 ThiC-associated domain; Region: ThiC-associated; pfam13667 397945002201 ThiC family; Region: ThiC; pfam01964 397945002202 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 397945002203 dimerization interface [polypeptide binding]; other site 397945002204 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002205 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002206 dimer interface [polypeptide binding]; other site 397945002207 putative CheW interface [polypeptide binding]; other site 397945002208 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 397945002209 dimerization interface [polypeptide binding]; other site 397945002210 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002211 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002212 dimer interface [polypeptide binding]; other site 397945002213 putative CheW interface [polypeptide binding]; other site 397945002214 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 397945002215 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 397945002216 active site 397945002217 putative DNA-binding cleft [nucleotide binding]; other site 397945002218 dimer interface [polypeptide binding]; other site 397945002219 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 397945002220 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 397945002221 putative acyl-acceptor binding pocket; other site 397945002222 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945002223 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 397945002224 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945002225 Cupin domain; Region: Cupin_2; pfam07883 397945002226 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 397945002227 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 397945002228 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 397945002229 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945002230 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 397945002231 Transglycosylase; Region: Transgly; cl17702 397945002232 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 397945002233 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 397945002234 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 397945002235 NAD(P) binding site [chemical binding]; other site 397945002236 shikimate binding site; other site 397945002237 TonB C terminal; Region: TonB_2; pfam13103 397945002238 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 397945002239 RNB domain; Region: RNB; pfam00773 397945002240 O-Antigen ligase; Region: Wzy_C; pfam04932 397945002241 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 397945002242 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 397945002243 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945002244 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 397945002245 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945002246 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945002247 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945002248 amidase; Provisional; Region: PRK07056 397945002249 Amidase; Region: Amidase; cl11426 397945002250 protease TldD; Provisional; Region: tldD; PRK10735 397945002251 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 397945002252 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 397945002253 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 397945002254 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002255 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002256 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002257 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 397945002258 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 397945002259 catalytic residues [active] 397945002260 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 397945002261 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 397945002262 carboxyltransferase (CT) interaction site; other site 397945002263 biotinylation site [posttranslational modification]; other site 397945002264 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 397945002265 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945002266 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 397945002267 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 397945002268 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 397945002269 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 397945002270 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 397945002271 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 397945002272 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 397945002273 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 397945002274 substrate binding site [chemical binding]; other site 397945002275 ATP binding site [chemical binding]; other site 397945002276 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 397945002277 dimer interface [polypeptide binding]; other site 397945002278 putative radical transfer pathway; other site 397945002279 diiron center [ion binding]; other site 397945002280 tyrosyl radical; other site 397945002281 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 397945002282 ATP cone domain; Region: ATP-cone; pfam03477 397945002283 ATP cone domain; Region: ATP-cone; pfam03477 397945002284 Class I ribonucleotide reductase; Region: RNR_I; cd01679 397945002285 active site 397945002286 dimer interface [polypeptide binding]; other site 397945002287 catalytic residues [active] 397945002288 effector binding site; other site 397945002289 R2 peptide binding site; other site 397945002290 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 397945002291 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 397945002292 amidase catalytic site [active] 397945002293 Zn binding residues [ion binding]; other site 397945002294 substrate binding site [chemical binding]; other site 397945002295 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945002296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945002297 active site 397945002298 phosphorylation site [posttranslational modification] 397945002299 intermolecular recognition site; other site 397945002300 dimerization interface [polypeptide binding]; other site 397945002301 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 397945002302 Walker A motif; other site 397945002303 ATP binding site [chemical binding]; other site 397945002304 Walker B motif; other site 397945002305 arginine finger; other site 397945002306 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945002307 PAS domain; Region: PAS; smart00091 397945002308 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945002309 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 397945002310 dimer interface [polypeptide binding]; other site 397945002311 phosphorylation site [posttranslational modification] 397945002312 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 397945002313 ATP binding site [chemical binding]; other site 397945002314 Mg2+ binding site [ion binding]; other site 397945002315 G-X-G motif; other site 397945002316 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 397945002317 signal recognition particle protein; Provisional; Region: PRK10867 397945002318 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 397945002319 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 397945002320 Signal peptide binding domain; Region: SRP_SPB; pfam02978 397945002321 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 397945002322 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 397945002323 Ligand binding site; other site 397945002324 DXD motif; other site 397945002325 response regulator GlrR; Provisional; Region: PRK15115 397945002326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945002327 active site 397945002328 phosphorylation site [posttranslational modification] 397945002329 intermolecular recognition site; other site 397945002330 dimerization interface [polypeptide binding]; other site 397945002331 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 397945002332 Walker A motif; other site 397945002333 ATP binding site [chemical binding]; other site 397945002334 Walker B motif; other site 397945002335 arginine finger; other site 397945002336 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 397945002337 dimer interface [polypeptide binding]; other site 397945002338 phosphorylation site [posttranslational modification] 397945002339 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 397945002340 ATP binding site [chemical binding]; other site 397945002341 Mg2+ binding site [ion binding]; other site 397945002342 G-X-G motif; other site 397945002343 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 397945002344 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 397945002345 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 397945002346 FeS/SAM binding site; other site 397945002347 TRAM domain; Region: TRAM; pfam01938 397945002348 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 397945002349 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 397945002350 Flavin binding site [chemical binding]; other site 397945002351 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 397945002352 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 397945002353 active site 397945002354 dimer interface [polypeptide binding]; other site 397945002355 non-prolyl cis peptide bond; other site 397945002356 insertion regions; other site 397945002357 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945002358 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 397945002359 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 397945002360 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 397945002361 Walker A motif; other site 397945002362 ATP binding site [chemical binding]; other site 397945002363 Walker B motif; other site 397945002364 arginine finger; other site 397945002365 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 397945002366 enoyl-CoA hydratase; Provisional; Region: PRK05862 397945002367 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 397945002368 substrate binding site [chemical binding]; other site 397945002369 oxyanion hole (OAH) forming residues; other site 397945002370 trimer interface [polypeptide binding]; other site 397945002371 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 397945002372 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 397945002373 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 397945002374 protein binding site [polypeptide binding]; other site 397945002375 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 397945002376 dimerization domain [polypeptide binding]; other site 397945002377 dimer interface [polypeptide binding]; other site 397945002378 catalytic residues [active] 397945002379 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 397945002380 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 397945002381 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 397945002382 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 397945002383 MOSC domain; Region: MOSC; pfam03473 397945002384 GTP-binding protein YchF; Reviewed; Region: PRK09601 397945002385 YchF GTPase; Region: YchF; cd01900 397945002386 G1 box; other site 397945002387 GTP/Mg2+ binding site [chemical binding]; other site 397945002388 Switch I region; other site 397945002389 G2 box; other site 397945002390 Switch II region; other site 397945002391 G3 box; other site 397945002392 G4 box; other site 397945002393 G5 box; other site 397945002394 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 397945002395 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945002396 HPP family; Region: HPP; pfam04982 397945002397 FOG: CBS domain [General function prediction only]; Region: COG0517 397945002398 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 397945002399 Predicted permeases [General function prediction only]; Region: RarD; COG2962 397945002400 Predicted membrane protein [Function unknown]; Region: COG1238 397945002401 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945002402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945002403 metal binding site [ion binding]; metal-binding site 397945002404 active site 397945002405 I-site; other site 397945002406 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 397945002407 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 397945002408 FMN binding site [chemical binding]; other site 397945002409 active site 397945002410 catalytic residues [active] 397945002411 substrate binding site [chemical binding]; other site 397945002412 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 397945002413 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 397945002414 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 397945002415 purine monophosphate binding site [chemical binding]; other site 397945002416 dimer interface [polypeptide binding]; other site 397945002417 putative catalytic residues [active] 397945002418 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 397945002419 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 397945002420 Pectate lyase; Region: Pectate_lyase; pfam03211 397945002421 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 397945002422 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 397945002423 inhibitor-cofactor binding pocket; inhibition site 397945002424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002425 catalytic residue [active] 397945002426 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 397945002427 substrate binding site [chemical binding]; other site 397945002428 ATP binding site [chemical binding]; other site 397945002429 Rubredoxin [Energy production and conversion]; Region: COG1773 397945002430 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 397945002431 iron binding site [ion binding]; other site 397945002432 Response regulator receiver domain; Region: Response_reg; pfam00072 397945002433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945002434 active site 397945002435 phosphorylation site [posttranslational modification] 397945002436 intermolecular recognition site; other site 397945002437 dimerization interface [polypeptide binding]; other site 397945002438 Response regulator receiver domain; Region: Response_reg; pfam00072 397945002439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945002440 active site 397945002441 phosphorylation site [posttranslational modification] 397945002442 intermolecular recognition site; other site 397945002443 dimerization interface [polypeptide binding]; other site 397945002444 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 397945002445 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 397945002446 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002448 dimer interface [polypeptide binding]; other site 397945002449 putative CheW interface [polypeptide binding]; other site 397945002450 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 397945002451 putative binding surface; other site 397945002452 active site 397945002453 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 397945002454 putative binding surface; other site 397945002455 active site 397945002456 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 397945002457 putative binding surface; other site 397945002458 active site 397945002459 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 397945002460 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 397945002461 ATP binding site [chemical binding]; other site 397945002462 Mg2+ binding site [ion binding]; other site 397945002463 G-X-G motif; other site 397945002464 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 397945002465 Response regulator receiver domain; Region: Response_reg; pfam00072 397945002466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945002467 active site 397945002468 phosphorylation site [posttranslational modification] 397945002469 intermolecular recognition site; other site 397945002470 dimerization interface [polypeptide binding]; other site 397945002471 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 397945002472 DNA photolyase; Region: DNA_photolyase; pfam00875 397945002473 hypothetical protein; Validated; Region: PRK00228 397945002474 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 397945002475 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945002476 active site 397945002477 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 397945002478 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 397945002479 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 397945002480 dihydroorotase; Provisional; Region: PRK07627 397945002481 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 397945002482 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 397945002483 active site 397945002484 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 397945002485 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945002486 putative acyl-acceptor binding pocket; other site 397945002487 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 397945002488 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 397945002489 Walker A/P-loop; other site 397945002490 ATP binding site [chemical binding]; other site 397945002491 Q-loop/lid; other site 397945002492 ABC transporter signature motif; other site 397945002493 Walker B; other site 397945002494 D-loop; other site 397945002495 H-loop/switch region; other site 397945002496 TOBE domain; Region: TOBE_2; pfam08402 397945002497 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 397945002498 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 397945002499 ArsC family; Region: ArsC; pfam03960 397945002500 catalytic residues [active] 397945002501 type II secretion system protein E; Region: type_II_gspE; TIGR02533 397945002502 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945002503 Walker A motif; other site 397945002504 ATP binding site [chemical binding]; other site 397945002505 Walker B motif; other site 397945002506 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002507 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002508 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002509 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 397945002510 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945002511 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 397945002512 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 397945002513 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 397945002514 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 397945002515 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 397945002516 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 397945002517 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 397945002518 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 397945002519 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 397945002520 cobalamin synthase; Reviewed; Region: cobS; PRK00235 397945002521 threonine dehydratase; Reviewed; Region: PRK09224 397945002522 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 397945002523 tetramer interface [polypeptide binding]; other site 397945002524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002525 catalytic residue [active] 397945002526 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 397945002527 putative Ile/Val binding site [chemical binding]; other site 397945002528 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 397945002529 putative Ile/Val binding site [chemical binding]; other site 397945002530 OsmC-like protein; Region: OsmC; cl00767 397945002531 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 397945002532 diiron binding motif [ion binding]; other site 397945002533 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 397945002534 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945002535 trimer interface [polypeptide binding]; other site 397945002536 eyelet of channel; other site 397945002537 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 397945002538 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945002539 trimer interface [polypeptide binding]; other site 397945002540 eyelet of channel; other site 397945002541 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945002542 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 397945002543 dimer interface [polypeptide binding]; other site 397945002544 conserved gate region; other site 397945002545 putative PBP binding loops; other site 397945002546 ABC-ATPase subunit interface; other site 397945002547 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945002548 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945002549 metal binding site [ion binding]; metal-binding site 397945002550 putative dimer interface [polypeptide binding]; other site 397945002551 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 397945002552 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 397945002553 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 397945002554 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 397945002555 dimer interface [polypeptide binding]; other site 397945002556 conserved gate region; other site 397945002557 putative PBP binding loops; other site 397945002558 ABC-ATPase subunit interface; other site 397945002559 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 397945002560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945002561 Walker A/P-loop; other site 397945002562 ATP binding site [chemical binding]; other site 397945002563 Q-loop/lid; other site 397945002564 ABC transporter signature motif; other site 397945002565 Walker B; other site 397945002566 D-loop; other site 397945002567 H-loop/switch region; other site 397945002568 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945002569 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 397945002570 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945002571 Walker A/P-loop; other site 397945002572 ATP binding site [chemical binding]; other site 397945002573 Q-loop/lid; other site 397945002574 ABC transporter signature motif; other site 397945002575 Walker B; other site 397945002576 D-loop; other site 397945002577 H-loop/switch region; other site 397945002578 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 397945002579 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945002580 HAMP domain; Region: HAMP; pfam00672 397945002581 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002582 dimer interface [polypeptide binding]; other site 397945002583 putative CheW interface [polypeptide binding]; other site 397945002584 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 397945002585 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 397945002586 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 397945002587 putative active site [active] 397945002588 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 397945002589 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 397945002590 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 397945002591 transaldolase-like protein; Provisional; Region: PTZ00411 397945002592 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 397945002593 active site 397945002594 dimer interface [polypeptide binding]; other site 397945002595 catalytic residue [active] 397945002596 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 397945002597 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 397945002598 active site 397945002599 dimer interface [polypeptide binding]; other site 397945002600 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 397945002601 dimer interface [polypeptide binding]; other site 397945002602 active site 397945002603 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 397945002604 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 397945002605 ring oligomerisation interface [polypeptide binding]; other site 397945002606 ATP/Mg binding site [chemical binding]; other site 397945002607 stacking interactions; other site 397945002608 hinge regions; other site 397945002609 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 397945002610 oligomerisation interface [polypeptide binding]; other site 397945002611 mobile loop; other site 397945002612 roof hairpin; other site 397945002613 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 397945002614 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 397945002615 Substrate binding site; other site 397945002616 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 397945002617 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 397945002618 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 397945002619 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 397945002620 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 397945002621 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 397945002622 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 397945002623 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 397945002624 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 397945002625 putative trimer interface [polypeptide binding]; other site 397945002626 putative active site [active] 397945002627 putative substrate binding site [chemical binding]; other site 397945002628 putative CoA binding site [chemical binding]; other site 397945002629 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 397945002630 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 397945002631 inhibitor-cofactor binding pocket; inhibition site 397945002632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002633 catalytic residue [active] 397945002634 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 397945002635 active site 397945002636 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 397945002637 homodimer interface [polypeptide binding]; other site 397945002638 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 397945002639 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 397945002640 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 397945002641 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 397945002642 Walker A/P-loop; other site 397945002643 ATP binding site [chemical binding]; other site 397945002644 Q-loop/lid; other site 397945002645 ABC transporter signature motif; other site 397945002646 Walker B; other site 397945002647 D-loop; other site 397945002648 H-loop/switch region; other site 397945002649 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 397945002650 putative carbohydrate binding site [chemical binding]; other site 397945002651 Methyltransferase domain; Region: Methyltransf_23; pfam13489 397945002652 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 397945002653 S-adenosylmethionine binding site [chemical binding]; other site 397945002654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 397945002655 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 397945002656 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002657 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 397945002658 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002659 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 397945002660 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 397945002661 active site 397945002662 dimer interface [polypeptide binding]; other site 397945002663 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 397945002664 Ligand Binding Site [chemical binding]; other site 397945002665 Molecular Tunnel; other site 397945002666 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002667 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 397945002668 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 397945002669 active site 397945002670 dimer interface [polypeptide binding]; other site 397945002671 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 397945002672 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 397945002673 Ligand Binding Site [chemical binding]; other site 397945002674 Molecular Tunnel; other site 397945002675 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002676 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 397945002677 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 397945002678 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002679 putative ADP-binding pocket [chemical binding]; other site 397945002680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002681 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_4; cd03795 397945002682 putative ADP-binding pocket [chemical binding]; other site 397945002683 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 397945002684 Ligand binding site; other site 397945002685 Putative Catalytic site; other site 397945002686 DXD motif; other site 397945002687 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 397945002688 binding surface 397945002689 TPR motif; other site 397945002690 TPR repeat; Region: TPR_11; pfam13414 397945002691 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 397945002692 binding surface 397945002693 Tetratricopeptide repeat; Region: TPR_16; pfam13432 397945002694 TPR motif; other site 397945002695 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 397945002696 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 397945002697 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 397945002698 homodimer interface [polypeptide binding]; other site 397945002699 active site 397945002700 FMN binding site [chemical binding]; other site 397945002701 substrate binding site [chemical binding]; other site 397945002702 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 397945002703 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 397945002704 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 397945002705 Na binding site [ion binding]; other site 397945002706 putative substrate binding site [chemical binding]; other site 397945002707 phenylhydantoinase; Validated; Region: PRK08323 397945002708 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 397945002709 tetramer interface [polypeptide binding]; other site 397945002710 active site 397945002711 allantoate amidohydrolase; Reviewed; Region: PRK12893 397945002712 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 397945002713 active site 397945002714 metal binding site [ion binding]; metal-binding site 397945002715 dimer interface [polypeptide binding]; other site 397945002716 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 397945002717 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 397945002718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945002719 active site 397945002720 nucleotide binding site [chemical binding]; other site 397945002721 HIGH motif; other site 397945002722 KMSKS motif; other site 397945002723 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 397945002724 nudix motif; other site 397945002725 NAD synthetase; Provisional; Region: PRK13981 397945002726 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 397945002727 multimer interface [polypeptide binding]; other site 397945002728 active site 397945002729 catalytic triad [active] 397945002730 protein interface 1 [polypeptide binding]; other site 397945002731 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 397945002732 homodimer interface [polypeptide binding]; other site 397945002733 NAD binding pocket [chemical binding]; other site 397945002734 ATP binding pocket [chemical binding]; other site 397945002735 Mg binding site [ion binding]; other site 397945002736 active-site loop [active] 397945002737 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 397945002738 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 397945002739 active site 397945002740 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 397945002741 catalytic triad [active] 397945002742 conserved cis-peptide bond; other site 397945002743 S-adenosylmethionine synthetase; Validated; Region: PRK05250 397945002744 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 397945002745 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 397945002746 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 397945002747 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 397945002748 putative acyl-acceptor binding pocket; other site 397945002749 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 397945002750 putative acyl-acceptor binding pocket; other site 397945002751 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 397945002752 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 397945002753 G1 box; other site 397945002754 GTP/Mg2+ binding site [chemical binding]; other site 397945002755 Switch I region; other site 397945002756 G2 box; other site 397945002757 G3 box; other site 397945002758 Switch II region; other site 397945002759 G4 box; other site 397945002760 G5 box; other site 397945002761 Cytochrome c553 [Energy production and conversion]; Region: COG2863 397945002762 Cytochrome c; Region: Cytochrom_C; cl11414 397945002763 ResB-like family; Region: ResB; pfam05140 397945002764 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 397945002765 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 397945002766 ResB-like family; Region: ResB; pfam05140 397945002767 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 397945002768 TMAO/DMSO reductase; Reviewed; Region: PRK05363 397945002769 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 397945002770 Moco binding site; other site 397945002771 metal coordination site [ion binding]; other site 397945002772 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 397945002773 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 397945002774 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 397945002775 diaminopimelate decarboxylase; Region: lysA; TIGR01048 397945002776 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 397945002777 active site 397945002778 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945002779 substrate binding site [chemical binding]; other site 397945002780 catalytic residues [active] 397945002781 dimer interface [polypeptide binding]; other site 397945002782 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 397945002783 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 397945002784 putative iron binding site [ion binding]; other site 397945002785 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 397945002786 Transglycosylase; Region: Transgly; pfam00912 397945002787 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 397945002788 Competence protein A; Region: Competence_A; pfam11104 397945002789 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 397945002790 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 397945002791 nucleotide binding site [chemical binding]; other site 397945002792 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 397945002793 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 397945002794 Pilus assembly protein, PilO; Region: PilO; pfam04350 397945002795 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 397945002796 Pilus assembly protein, PilP; Region: PilP; pfam04351 397945002797 AMIN domain; Region: AMIN; pfam11741 397945002798 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 397945002799 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002800 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945002801 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 397945002802 shikimate kinase; Reviewed; Region: aroK; PRK00131 397945002803 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 397945002804 ADP binding site [chemical binding]; other site 397945002805 magnesium binding site [ion binding]; other site 397945002806 putative shikimate binding site; other site 397945002807 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 397945002808 active site 397945002809 dimer interface [polypeptide binding]; other site 397945002810 metal binding site [ion binding]; metal-binding site 397945002811 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 397945002812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945002813 Zn2+ binding site [ion binding]; other site 397945002814 Mg2+ binding site [ion binding]; other site 397945002815 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 397945002816 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 397945002817 Methyltransferase domain; Region: Methyltransf_32; pfam13679 397945002818 Methyltransferase domain; Region: Methyltransf_31; pfam13847 397945002819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 397945002820 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 397945002821 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 397945002822 active site 397945002823 dimer interface [polypeptide binding]; other site 397945002824 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 397945002825 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 397945002826 active site 397945002827 FMN binding site [chemical binding]; other site 397945002828 substrate binding site [chemical binding]; other site 397945002829 3Fe-4S cluster binding site [ion binding]; other site 397945002830 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 397945002831 domain interface; other site 397945002832 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 397945002833 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945002834 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945002835 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 397945002836 substrate binding pocket [chemical binding]; other site 397945002837 membrane-bound complex binding site; other site 397945002838 hinge residues; other site 397945002839 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 397945002840 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 397945002841 dimer interface [polypeptide binding]; other site 397945002842 conserved gate region; other site 397945002843 putative PBP binding loops; other site 397945002844 ABC-ATPase subunit interface; other site 397945002845 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945002846 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 397945002847 Walker A/P-loop; other site 397945002848 ATP binding site [chemical binding]; other site 397945002849 Q-loop/lid; other site 397945002850 ABC transporter signature motif; other site 397945002851 Walker B; other site 397945002852 D-loop; other site 397945002853 H-loop/switch region; other site 397945002854 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 397945002855 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 397945002856 Walker A/P-loop; other site 397945002857 ATP binding site [chemical binding]; other site 397945002858 Q-loop/lid; other site 397945002859 ABC transporter signature motif; other site 397945002860 Walker B; other site 397945002861 D-loop; other site 397945002862 H-loop/switch region; other site 397945002863 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 397945002864 Permease; Region: Permease; pfam02405 397945002865 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 397945002866 mce related protein; Region: MCE; pfam02470 397945002867 VacJ like lipoprotein; Region: VacJ; cl01073 397945002868 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 397945002869 STAS domain; Region: STAS_2; pfam13466 397945002870 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 397945002871 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 397945002872 Walker A/P-loop; other site 397945002873 ATP binding site [chemical binding]; other site 397945002874 Q-loop/lid; other site 397945002875 ABC transporter signature motif; other site 397945002876 Walker B; other site 397945002877 D-loop; other site 397945002878 H-loop/switch region; other site 397945002879 ABC-2 type transporter; Region: ABC2_membrane; cl17235 397945002880 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 397945002881 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 397945002882 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 397945002883 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 397945002884 hinge; other site 397945002885 active site 397945002886 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 397945002887 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 397945002888 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 397945002889 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 397945002890 NAD binding site [chemical binding]; other site 397945002891 dimerization interface [polypeptide binding]; other site 397945002892 product binding site; other site 397945002893 substrate binding site [chemical binding]; other site 397945002894 zinc binding site [ion binding]; other site 397945002895 catalytic residues [active] 397945002896 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 397945002897 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 397945002898 putative active site [active] 397945002899 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 397945002900 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 397945002901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002902 homodimer interface [polypeptide binding]; other site 397945002903 catalytic residue [active] 397945002904 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 397945002905 putative active site pocket [active] 397945002906 4-fold oligomerization interface [polypeptide binding]; other site 397945002907 metal binding residues [ion binding]; metal-binding site 397945002908 3-fold/trimer interface [polypeptide binding]; other site 397945002909 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 397945002910 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 397945002911 putative active site [active] 397945002912 oxyanion strand; other site 397945002913 catalytic triad [active] 397945002914 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 397945002915 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 397945002916 catalytic residues [active] 397945002917 Spherulation-specific family 4; Region: Spherulin4; pfam12138 397945002918 Spherulation-specific family 4; Region: Spherulin4; pfam12138 397945002919 Predicted membrane protein [Function unknown]; Region: COG4267 397945002920 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_3; cd03813 397945002921 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002922 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 397945002923 TPR motif; other site 397945002924 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 397945002925 GAF domain; Region: GAF_3; pfam13492 397945002926 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 397945002927 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 397945002928 Tetratricopeptide repeat; Region: TPR_15; pfam13429 397945002929 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 397945002930 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 397945002931 putative active site [active] 397945002932 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 397945002933 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 397945002934 NAD binding site [chemical binding]; other site 397945002935 homodimer interface [polypeptide binding]; other site 397945002936 active site 397945002937 substrate binding site [chemical binding]; other site 397945002938 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 397945002939 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 397945002940 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 397945002941 active site 397945002942 phosphate binding residues; other site 397945002943 catalytic residues [active] 397945002944 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 397945002945 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 397945002946 substrate binding site [chemical binding]; other site 397945002947 glutamase interaction surface [polypeptide binding]; other site 397945002948 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 397945002949 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 397945002950 metal binding site [ion binding]; metal-binding site 397945002951 Predicted membrane protein [Function unknown]; Region: COG3671 397945002952 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 397945002953 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 397945002954 active site 397945002955 nucleophile elbow; other site 397945002956 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 397945002957 nucleotide binding site/active site [active] 397945002958 HIT family signature motif; other site 397945002959 catalytic residue [active] 397945002960 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 397945002961 sec-independent translocase; Provisional; Region: tatB; PRK01919 397945002962 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 397945002963 metabolite-proton symporter; Region: 2A0106; TIGR00883 397945002964 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 397945002965 putative substrate translocation pore; other site 397945002966 Uncharacterized conserved protein [Function unknown]; Region: COG0327 397945002967 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 397945002968 von Willebrand factor type A domain; Region: VWA_2; pfam13519 397945002969 metal ion-dependent adhesion site (MIDAS); other site 397945002970 Protein of unknown function DUF58; Region: DUF58; pfam01882 397945002971 MoxR-like ATPases [General function prediction only]; Region: COG0714 397945002972 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 397945002973 Walker A motif; other site 397945002974 ATP binding site [chemical binding]; other site 397945002975 Walker B motif; other site 397945002976 arginine finger; other site 397945002977 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 397945002978 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 397945002979 active site 397945002980 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 397945002981 putative active site [active] 397945002982 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 397945002983 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 397945002984 type II secretion system protein E; Region: type_II_gspE; TIGR02533 397945002985 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945002986 Walker A motif; other site 397945002987 ATP binding site [chemical binding]; other site 397945002988 Walker B motif; other site 397945002989 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945002990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 397945002991 Winged helix-turn helix; Region: HTH_29; pfam13551 397945002992 Homeodomain-like domain; Region: HTH_32; pfam13565 397945002993 Integrase core domain; Region: rve; pfam00665 397945002994 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945002995 Integrase core domain; Region: rve_3; pfam13683 397945002996 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 397945002997 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 397945002998 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 397945002999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945003000 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 397945003001 EamA-like transporter family; Region: EamA; pfam00892 397945003002 EamA-like transporter family; Region: EamA; pfam00892 397945003003 short chain dehydrogenase; Provisional; Region: PRK08339 397945003004 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 397945003005 putative NAD(P) binding site [chemical binding]; other site 397945003006 putative active site [active] 397945003007 Cache domain; Region: Cache_1; pfam02743 397945003008 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 397945003009 dimerization interface [polypeptide binding]; other site 397945003010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003012 dimer interface [polypeptide binding]; other site 397945003013 putative CheW interface [polypeptide binding]; other site 397945003014 UreD urease accessory protein; Region: UreD; pfam01774 397945003015 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 397945003016 nucleoside/Zn binding site; other site 397945003017 dimer interface [polypeptide binding]; other site 397945003018 catalytic motif [active] 397945003019 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 397945003020 NMT1/THI5 like; Region: NMT1; pfam09084 397945003021 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 397945003022 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 397945003023 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 397945003024 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 397945003025 rRNA binding site [nucleotide binding]; other site 397945003026 predicted 30S ribosome binding site; other site 397945003027 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 397945003028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003029 NAD(P) binding site [chemical binding]; other site 397945003030 active site 397945003031 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945003032 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 397945003033 dimer interface [polypeptide binding]; other site 397945003034 conserved gate region; other site 397945003035 putative PBP binding loops; other site 397945003036 ABC-ATPase subunit interface; other site 397945003037 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945003038 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 397945003039 Walker A/P-loop; other site 397945003040 ATP binding site [chemical binding]; other site 397945003041 Q-loop/lid; other site 397945003042 ABC transporter signature motif; other site 397945003043 Walker B; other site 397945003044 D-loop; other site 397945003045 H-loop/switch region; other site 397945003046 NMT1/THI5 like; Region: NMT1; pfam09084 397945003047 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 397945003048 dimer interface [polypeptide binding]; other site 397945003049 catalytic motif [active] 397945003050 nucleoside/Zn binding site; other site 397945003051 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 397945003052 Malic enzyme, N-terminal domain; Region: malic; pfam00390 397945003053 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 397945003054 putative NAD(P) binding site [chemical binding]; other site 397945003055 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 397945003056 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945003057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945003058 DNA-binding site [nucleotide binding]; DNA binding site 397945003059 FCD domain; Region: FCD; pfam07729 397945003060 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 397945003061 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 397945003062 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 397945003063 Na binding site [ion binding]; other site 397945003064 putative substrate binding site [chemical binding]; other site 397945003065 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945003066 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945003067 DNA-binding site [nucleotide binding]; DNA binding site 397945003068 FCD domain; Region: FCD; pfam07729 397945003069 Cache domain; Region: Cache_1; pfam02743 397945003070 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 397945003071 dimerization interface [polypeptide binding]; other site 397945003072 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003073 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003074 dimer interface [polypeptide binding]; other site 397945003075 putative CheW interface [polypeptide binding]; other site 397945003076 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 397945003077 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 397945003078 Winged helix-turn helix; Region: HTH_29; pfam13551 397945003079 Homeodomain-like domain; Region: HTH_32; pfam13565 397945003080 Integrase core domain; Region: rve; pfam00665 397945003081 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945003082 Integrase core domain; Region: rve_3; pfam13683 397945003083 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 397945003084 DNA polymerase; Provisional; Region: 43; PHA02528 397945003085 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 397945003086 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 397945003087 putative metal binding site [ion binding]; other site 397945003088 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 397945003089 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 397945003090 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 397945003091 active site 397945003092 metal binding site [ion binding]; metal-binding site 397945003093 dimer interface [polypeptide binding]; other site 397945003094 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 397945003095 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 397945003096 active site 397945003097 catalytic site [active] 397945003098 tetramer interface [polypeptide binding]; other site 397945003099 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945003100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945003101 DNA-binding site [nucleotide binding]; DNA binding site 397945003102 FCD domain; Region: FCD; pfam07729 397945003103 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 397945003104 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 397945003105 MOFRL family; Region: MOFRL; pfam05161 397945003106 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945003107 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945003108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945003109 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945003110 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945003111 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 397945003112 active site 397945003113 homotetramer interface [polypeptide binding]; other site 397945003114 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 397945003115 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 397945003116 XdhC Rossmann domain; Region: XdhC_C; pfam13478 397945003117 Predicted membrane protein [Function unknown]; Region: COG3748 397945003118 Protein of unknown function (DUF989); Region: DUF989; pfam06181 397945003119 Cytochrome c; Region: Cytochrom_C; pfam00034 397945003120 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 397945003121 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 397945003122 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945003123 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003124 metal binding site [ion binding]; metal-binding site 397945003125 active site 397945003126 I-site; other site 397945003127 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945003128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945003129 active site 397945003130 phosphorylation site [posttranslational modification] 397945003131 intermolecular recognition site; other site 397945003132 dimerization interface [polypeptide binding]; other site 397945003133 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 397945003134 DNA binding residues [nucleotide binding] 397945003135 dimerization interface [polypeptide binding]; other site 397945003136 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 397945003137 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 397945003138 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 397945003139 ATP binding site [chemical binding]; other site 397945003140 Mg2+ binding site [ion binding]; other site 397945003141 G-X-G motif; other site 397945003142 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 397945003143 homotrimer interaction site [polypeptide binding]; other site 397945003144 putative active site [active] 397945003145 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 397945003146 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 397945003147 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945003148 catalytic residue [active] 397945003149 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945003150 trimer interface [polypeptide binding]; other site 397945003151 eyelet of channel; other site 397945003152 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 397945003153 PAS domain; Region: PAS_9; pfam13426 397945003154 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 397945003155 putative active site [active] 397945003156 heme pocket [chemical binding]; other site 397945003157 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945003158 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003159 metal binding site [ion binding]; metal-binding site 397945003160 active site 397945003161 I-site; other site 397945003162 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 397945003163 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 397945003164 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945003165 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 397945003166 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 397945003167 catalytic loop [active] 397945003168 iron binding site [ion binding]; other site 397945003169 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 397945003170 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 397945003171 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 397945003172 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 397945003173 Walker A/P-loop; other site 397945003174 ATP binding site [chemical binding]; other site 397945003175 Q-loop/lid; other site 397945003176 ABC transporter signature motif; other site 397945003177 Walker B; other site 397945003178 D-loop; other site 397945003179 H-loop/switch region; other site 397945003180 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 397945003181 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945003182 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 397945003183 TM-ABC transporter signature motif; other site 397945003184 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 397945003185 TM-ABC transporter signature motif; other site 397945003186 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 397945003187 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 397945003188 putative ligand binding site [chemical binding]; other site 397945003189 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 397945003190 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 397945003191 [2Fe-2S] cluster binding site [ion binding]; other site 397945003192 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 397945003193 hydrophobic ligand binding site; other site 397945003194 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 397945003195 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 397945003196 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 397945003197 active site 397945003198 purine riboside binding site [chemical binding]; other site 397945003199 Penicillin amidase; Region: Penicil_amidase; pfam01804 397945003200 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 397945003201 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 397945003202 active site 397945003203 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 397945003204 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 397945003205 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 397945003206 putative ligand binding site [chemical binding]; other site 397945003207 NAD binding site [chemical binding]; other site 397945003208 catalytic site [active] 397945003209 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 397945003210 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 397945003211 putative ligand binding site [chemical binding]; other site 397945003212 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 397945003213 trimer interface [polypeptide binding]; other site 397945003214 active site 397945003215 Predicted metalloprotease [General function prediction only]; Region: COG2321 397945003216 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 397945003217 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 397945003218 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 397945003219 ATP binding site [chemical binding]; other site 397945003220 Mg++ binding site [ion binding]; other site 397945003221 motif III; other site 397945003222 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 397945003223 nucleotide binding region [chemical binding]; other site 397945003224 ATP-binding site [chemical binding]; other site 397945003225 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 397945003226 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 397945003227 active site 397945003228 metal binding site [ion binding]; metal-binding site 397945003229 H-NS histone family; Region: Histone_HNS; pfam00816 397945003230 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 397945003231 aconitate hydratase; Validated; Region: PRK09277 397945003232 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 397945003233 substrate binding site [chemical binding]; other site 397945003234 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 397945003235 ligand binding site [chemical binding]; other site 397945003236 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 397945003237 substrate binding site [chemical binding]; other site 397945003238 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945003239 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 397945003240 putative active site [active] 397945003241 heme pocket [chemical binding]; other site 397945003242 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 397945003243 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945003244 putative active site [active] 397945003245 heme pocket [chemical binding]; other site 397945003246 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 397945003247 putative active site [active] 397945003248 heme pocket [chemical binding]; other site 397945003249 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945003250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003251 metal binding site [ion binding]; metal-binding site 397945003252 active site 397945003253 I-site; other site 397945003254 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 397945003255 PAS fold; Region: PAS_7; pfam12860 397945003256 PAS domain S-box; Region: sensory_box; TIGR00229 397945003257 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 397945003258 putative active site [active] 397945003259 heme pocket [chemical binding]; other site 397945003260 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945003261 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003262 metal binding site [ion binding]; metal-binding site 397945003263 active site 397945003264 I-site; other site 397945003265 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 397945003266 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 397945003267 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 397945003268 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 397945003269 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 397945003270 kynureninase; Region: kynureninase; TIGR01814 397945003271 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945003272 catalytic residue [active] 397945003273 Putative cyclase; Region: Cyclase; cl00814 397945003274 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945003275 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 397945003276 putative DNA binding site [nucleotide binding]; other site 397945003277 putative Zn2+ binding site [ion binding]; other site 397945003278 AsnC family; Region: AsnC_trans_reg; pfam01037 397945003279 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 397945003280 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 397945003281 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 397945003282 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 397945003283 G1 box; other site 397945003284 GTP/Mg2+ binding site [chemical binding]; other site 397945003285 Switch I region; other site 397945003286 G2 box; other site 397945003287 G3 box; other site 397945003288 Switch II region; other site 397945003289 G4 box; other site 397945003290 G5 box; other site 397945003291 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 397945003292 Nucleoside recognition; Region: Gate; pfam07670 397945003293 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 397945003294 Nucleoside recognition; Region: Gate; pfam07670 397945003295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 397945003296 ornithine carbamoyltransferase; Provisional; Region: PRK00779 397945003297 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 397945003298 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 397945003299 acetylornithine aminotransferase; Provisional; Region: PRK02627 397945003300 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 397945003301 inhibitor-cofactor binding pocket; inhibition site 397945003302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003303 catalytic residue [active] 397945003304 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 397945003305 malate:quinone oxidoreductase; Validated; Region: PRK05257 397945003306 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 397945003307 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 397945003308 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 397945003309 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 397945003310 Uncharacterized conserved protein [Function unknown]; Region: COG2912 397945003311 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 397945003312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 397945003313 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 397945003314 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 397945003315 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 397945003316 hypothetical protein; Validated; Region: PRK02101 397945003317 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 397945003318 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 397945003319 homodimer interface [polypeptide binding]; other site 397945003320 oligonucleotide binding site [chemical binding]; other site 397945003321 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 397945003322 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 397945003323 RNA binding surface [nucleotide binding]; other site 397945003324 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 397945003325 active site 397945003326 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 397945003327 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 397945003328 motif II; other site 397945003329 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 397945003330 iron-sulfur cluster [ion binding]; other site 397945003331 [2Fe-2S] cluster binding site [ion binding]; other site 397945003332 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 397945003333 tandem repeat interface [polypeptide binding]; other site 397945003334 oligomer interface [polypeptide binding]; other site 397945003335 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 397945003336 active site residues [active] 397945003337 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 397945003338 putative SAM binding site [chemical binding]; other site 397945003339 homodimer interface [polypeptide binding]; other site 397945003340 Maf-like protein; Region: Maf; pfam02545 397945003341 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 397945003342 active site 397945003343 dimer interface [polypeptide binding]; other site 397945003344 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 397945003345 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 397945003346 putative phosphate acyltransferase; Provisional; Region: PRK05331 397945003347 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 397945003348 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 397945003349 dimer interface [polypeptide binding]; other site 397945003350 active site 397945003351 CoA binding pocket [chemical binding]; other site 397945003352 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 397945003353 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 397945003354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003355 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 397945003356 NAD(P) binding site [chemical binding]; other site 397945003357 active site 397945003358 acyl carrier protein; Provisional; Region: acpP; PRK00982 397945003359 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 397945003360 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 397945003361 dimer interface [polypeptide binding]; other site 397945003362 active site 397945003363 Pleckstrin homology-like domain; Region: PH-like; cl17171 397945003364 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 397945003365 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945003366 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 397945003367 DNA binding residues [nucleotide binding] 397945003368 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 397945003369 MucB/RseB family; Region: MucB_RseB; pfam03888 397945003370 anti-sigma E factor; Provisional; Region: rseB; PRK09455 397945003371 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 397945003372 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 397945003373 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 397945003374 protein binding site [polypeptide binding]; other site 397945003375 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 397945003376 protein binding site [polypeptide binding]; other site 397945003377 GTP-binding protein LepA; Provisional; Region: PRK05433 397945003378 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 397945003379 G1 box; other site 397945003380 putative GEF interaction site [polypeptide binding]; other site 397945003381 GTP/Mg2+ binding site [chemical binding]; other site 397945003382 Switch I region; other site 397945003383 G2 box; other site 397945003384 G3 box; other site 397945003385 Switch II region; other site 397945003386 G4 box; other site 397945003387 G5 box; other site 397945003388 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 397945003389 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 397945003390 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 397945003391 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 397945003392 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 397945003393 Catalytic site [active] 397945003394 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 397945003395 ribonuclease III; Reviewed; Region: rnc; PRK00102 397945003396 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 397945003397 dimerization interface [polypeptide binding]; other site 397945003398 active site 397945003399 metal binding site [ion binding]; metal-binding site 397945003400 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 397945003401 dsRNA binding site [nucleotide binding]; other site 397945003402 GTPase Era; Reviewed; Region: era; PRK00089 397945003403 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 397945003404 G1 box; other site 397945003405 GTP/Mg2+ binding site [chemical binding]; other site 397945003406 Switch I region; other site 397945003407 G2 box; other site 397945003408 Switch II region; other site 397945003409 G3 box; other site 397945003410 G4 box; other site 397945003411 G5 box; other site 397945003412 KH domain; Region: KH_2; pfam07650 397945003413 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 397945003414 Recombination protein O N terminal; Region: RecO_N; pfam11967 397945003415 Recombination protein O C terminal; Region: RecO_C; pfam02565 397945003416 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 397945003417 active site 397945003418 hydrophilic channel; other site 397945003419 dimerization interface [polypeptide binding]; other site 397945003420 catalytic residues [active] 397945003421 active site lid [active] 397945003422 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 397945003423 beta-hexosaminidase; Provisional; Region: PRK05337 397945003424 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 397945003425 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 397945003426 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 397945003427 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945003428 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 397945003429 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 397945003430 dimer interface [polypeptide binding]; other site 397945003431 putative anticodon binding site; other site 397945003432 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 397945003433 motif 1; other site 397945003434 active site 397945003435 motif 2; other site 397945003436 motif 3; other site 397945003437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945003438 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 397945003439 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945003440 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 397945003441 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 397945003442 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 397945003443 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 397945003444 Bacterial sugar transferase; Region: Bac_transf; pfam02397 397945003445 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945003446 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 397945003447 putative ADP-binding pocket [chemical binding]; other site 397945003448 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 397945003449 YGGT family; Region: YGGT; pfam02325 397945003450 YGGT family; Region: YGGT; pfam02325 397945003451 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 397945003452 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 397945003453 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 397945003454 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 397945003455 substrate binding site [chemical binding]; other site 397945003456 active site 397945003457 catalytic residues [active] 397945003458 heterodimer interface [polypeptide binding]; other site 397945003459 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 397945003460 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 397945003461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003462 catalytic residue [active] 397945003463 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 397945003464 active site 397945003465 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 397945003466 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 397945003467 dimerization interface 3.5A [polypeptide binding]; other site 397945003468 active site 397945003469 FimV N-terminal domain; Region: FimV_core; TIGR03505 397945003470 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 397945003471 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 397945003472 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 397945003473 short chain dehydrogenase; Provisional; Region: PRK07478 397945003474 classical (c) SDRs; Region: SDR_c; cd05233 397945003475 NAD(P) binding site [chemical binding]; other site 397945003476 active site 397945003477 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 397945003478 tartrate dehydrogenase; Region: TTC; TIGR02089 397945003479 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 397945003480 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 397945003481 substrate binding site [chemical binding]; other site 397945003482 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 397945003483 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 397945003484 substrate binding site [chemical binding]; other site 397945003485 ligand binding site [chemical binding]; other site 397945003486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945003487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945003488 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 397945003489 putative dimerization interface [polypeptide binding]; other site 397945003490 chaperone protein DnaJ; Provisional; Region: PRK10767 397945003491 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 397945003492 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 397945003493 substrate binding site [polypeptide binding]; other site 397945003494 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 397945003495 Zn binding sites [ion binding]; other site 397945003496 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 397945003497 dimer interface [polypeptide binding]; other site 397945003498 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 397945003499 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 397945003500 nucleotide binding site [chemical binding]; other site 397945003501 GrpE; Region: GrpE; pfam01025 397945003502 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 397945003503 dimer interface [polypeptide binding]; other site 397945003504 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 397945003505 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 397945003506 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 397945003507 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 397945003508 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 397945003509 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 397945003510 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 397945003511 replicative DNA helicase; Region: DnaB; TIGR00665 397945003512 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 397945003513 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 397945003514 Walker A motif; other site 397945003515 ATP binding site [chemical binding]; other site 397945003516 Walker B motif; other site 397945003517 DNA binding loops [nucleotide binding] 397945003518 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 397945003519 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 397945003520 putative active site [active] 397945003521 PhoH-like protein; Region: PhoH; pfam02562 397945003522 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 397945003523 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 397945003524 catalytic triad [active] 397945003525 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 397945003526 aminotransferase AlaT; Validated; Region: PRK09265 397945003527 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 397945003528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003529 homodimer interface [polypeptide binding]; other site 397945003530 catalytic residue [active] 397945003531 homoserine dehydrogenase; Provisional; Region: PRK06349 397945003532 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 397945003533 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 397945003534 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 397945003535 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 397945003536 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 397945003537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003538 catalytic residue [active] 397945003539 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 397945003540 Walker A motif; other site 397945003541 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 397945003542 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 397945003543 dimer interface [polypeptide binding]; other site 397945003544 putative functional site; other site 397945003545 putative MPT binding site; other site 397945003546 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 397945003547 MoaE interaction surface [polypeptide binding]; other site 397945003548 MoeB interaction surface [polypeptide binding]; other site 397945003549 thiocarboxylated glycine; other site 397945003550 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 397945003551 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945003552 dimer interface [polypeptide binding]; other site 397945003553 active site 397945003554 catalytic residue [active] 397945003555 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 397945003556 MoaE homodimer interface [polypeptide binding]; other site 397945003557 MoaD interaction [polypeptide binding]; other site 397945003558 active site residues [active] 397945003559 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 397945003560 Clp amino terminal domain; Region: Clp_N; pfam02861 397945003561 Clp amino terminal domain; Region: Clp_N; pfam02861 397945003562 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 397945003563 Walker A motif; other site 397945003564 ATP binding site [chemical binding]; other site 397945003565 Walker B motif; other site 397945003566 arginine finger; other site 397945003567 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 397945003568 Walker A motif; other site 397945003569 ATP binding site [chemical binding]; other site 397945003570 Walker B motif; other site 397945003571 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 397945003572 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 397945003573 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 397945003574 NAD(P) binding site [chemical binding]; other site 397945003575 catalytic residues [active] 397945003576 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 397945003577 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945003578 Coenzyme A binding pocket [chemical binding]; other site 397945003579 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 397945003580 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 397945003581 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 397945003582 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 397945003583 FMN binding site [chemical binding]; other site 397945003584 active site 397945003585 catalytic residues [active] 397945003586 substrate binding site [chemical binding]; other site 397945003587 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 397945003588 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 397945003589 putative active site [active] 397945003590 catalytic site [active] 397945003591 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 397945003592 PLD-like domain; Region: PLDc_2; pfam13091 397945003593 putative active site [active] 397945003594 catalytic site [active] 397945003595 aspartate aminotransferase; Provisional; Region: PRK06108 397945003596 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 397945003597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003598 homodimer interface [polypeptide binding]; other site 397945003599 catalytic residue [active] 397945003600 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 397945003601 16S/18S rRNA binding site [nucleotide binding]; other site 397945003602 S13e-L30e interaction site [polypeptide binding]; other site 397945003603 25S rRNA binding site [nucleotide binding]; other site 397945003604 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 397945003605 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 397945003606 RNase E interface [polypeptide binding]; other site 397945003607 trimer interface [polypeptide binding]; other site 397945003608 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 397945003609 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 397945003610 RNase E interface [polypeptide binding]; other site 397945003611 trimer interface [polypeptide binding]; other site 397945003612 active site 397945003613 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 397945003614 putative nucleic acid binding region [nucleotide binding]; other site 397945003615 G-X-X-G motif; other site 397945003616 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 397945003617 RNA binding site [nucleotide binding]; other site 397945003618 domain interface; other site 397945003619 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 397945003620 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 397945003621 NAD(P) binding site [chemical binding]; other site 397945003622 triosephosphate isomerase; Provisional; Region: PRK14567 397945003623 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 397945003624 substrate binding site [chemical binding]; other site 397945003625 dimer interface [polypeptide binding]; other site 397945003626 catalytic triad [active] 397945003627 Preprotein translocase SecG subunit; Region: SecG; pfam03840 397945003628 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 397945003629 NADH dehydrogenase subunit B; Validated; Region: PRK06411 397945003630 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 397945003631 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 397945003632 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 397945003633 NADH dehydrogenase subunit D; Validated; Region: PRK06075 397945003634 NADH dehydrogenase subunit E; Validated; Region: PRK07539 397945003635 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 397945003636 putative dimer interface [polypeptide binding]; other site 397945003637 [2Fe-2S] cluster binding site [ion binding]; other site 397945003638 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 397945003639 SLBB domain; Region: SLBB; pfam10531 397945003640 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 397945003641 NADH dehydrogenase subunit G; Validated; Region: PRK09129 397945003642 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 397945003643 catalytic loop [active] 397945003644 iron binding site [ion binding]; other site 397945003645 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 397945003646 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 397945003647 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 397945003648 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 397945003649 4Fe-4S binding domain; Region: Fer4; cl02805 397945003650 4Fe-4S binding domain; Region: Fer4; pfam00037 397945003651 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 397945003652 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 397945003653 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 397945003654 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 397945003655 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 397945003656 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 397945003657 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 397945003658 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 397945003659 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 397945003660 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 397945003661 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 397945003662 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 397945003663 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 397945003664 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 397945003665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945003666 Walker A/P-loop; other site 397945003667 ATP binding site [chemical binding]; other site 397945003668 Q-loop/lid; other site 397945003669 ABC transporter signature motif; other site 397945003670 Walker B; other site 397945003671 D-loop; other site 397945003672 H-loop/switch region; other site 397945003673 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945003674 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945003675 Walker A/P-loop; other site 397945003676 ATP binding site [chemical binding]; other site 397945003677 Q-loop/lid; other site 397945003678 ABC transporter signature motif; other site 397945003679 Walker B; other site 397945003680 D-loop; other site 397945003681 H-loop/switch region; other site 397945003682 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945003683 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945003684 Walker A/P-loop; other site 397945003685 ATP binding site [chemical binding]; other site 397945003686 Q-loop/lid; other site 397945003687 ABC transporter signature motif; other site 397945003688 Walker B; other site 397945003689 D-loop; other site 397945003690 H-loop/switch region; other site 397945003691 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945003692 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 397945003693 putative ligand binding site [chemical binding]; other site 397945003694 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945003695 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 397945003696 putative ligand binding site [chemical binding]; other site 397945003697 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 397945003698 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945003699 TM-ABC transporter signature motif; other site 397945003700 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945003701 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 397945003702 TM-ABC transporter signature motif; other site 397945003703 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 397945003704 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 397945003705 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 397945003706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945003707 catalytic residue [active] 397945003708 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 397945003709 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 397945003710 active site 397945003711 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 397945003712 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 397945003713 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 397945003714 putative dimer interface [polypeptide binding]; other site 397945003715 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945003716 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 397945003717 Walker A/P-loop; other site 397945003718 ATP binding site [chemical binding]; other site 397945003719 Q-loop/lid; other site 397945003720 ABC transporter signature motif; other site 397945003721 Walker B; other site 397945003722 D-loop; other site 397945003723 H-loop/switch region; other site 397945003724 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 397945003725 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 397945003726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003727 NmrA-like family; Region: NmrA; pfam05368 397945003728 NAD(P) binding site [chemical binding]; other site 397945003729 active site 397945003730 Predicted transcriptional regulators [Transcription]; Region: COG1733 397945003731 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 397945003732 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 397945003733 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 397945003734 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 397945003735 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 397945003736 putative active site [active] 397945003737 catalytic site [active] 397945003738 putative metal binding site [ion binding]; other site 397945003739 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 397945003740 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 397945003741 ATP binding site [chemical binding]; other site 397945003742 Mg2+ binding site [ion binding]; other site 397945003743 G-X-G motif; other site 397945003744 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 397945003745 ATP binding site [chemical binding]; other site 397945003746 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 397945003747 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 397945003748 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 397945003749 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 397945003750 Cupin domain; Region: Cupin_2; cl17218 397945003751 AMIN domain; Region: AMIN; pfam11741 397945003752 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 397945003753 active site 397945003754 metal binding site [ion binding]; metal-binding site 397945003755 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 397945003756 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 397945003757 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 397945003758 Predicted permeases [General function prediction only]; Region: COG0679 397945003759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945003760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945003761 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 397945003762 dimerization interface [polypeptide binding]; other site 397945003763 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 397945003764 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 397945003765 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 397945003766 hypothetical protein; Provisional; Region: PRK10621 397945003767 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 397945003768 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945003769 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 397945003770 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 397945003771 active site 397945003772 DNA binding site [nucleotide binding] 397945003773 Int/Topo IB signature motif; other site 397945003774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945003775 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 397945003776 EAL domain; Region: EAL; pfam00563 397945003777 EAL domain; Region: EAL; pfam00563 397945003778 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 397945003779 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 397945003780 dinuclear metal binding motif [ion binding]; other site 397945003781 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 397945003782 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 397945003783 trimer interface [polypeptide binding]; other site 397945003784 putative metal binding site [ion binding]; other site 397945003785 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 397945003786 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 397945003787 dimerization interface [polypeptide binding]; other site 397945003788 domain crossover interface; other site 397945003789 redox-dependent activation switch; other site 397945003790 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 397945003791 Septum formation initiator; Region: DivIC; cl17659 397945003792 enolase; Provisional; Region: eno; PRK00077 397945003793 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 397945003794 dimer interface [polypeptide binding]; other site 397945003795 metal binding site [ion binding]; metal-binding site 397945003796 substrate binding pocket [chemical binding]; other site 397945003797 Uncharacterized conserved protein [Function unknown]; Region: COG5470 397945003798 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 397945003799 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 397945003800 CTP synthetase; Validated; Region: pyrG; PRK05380 397945003801 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 397945003802 Catalytic site [active] 397945003803 active site 397945003804 UTP binding site [chemical binding]; other site 397945003805 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 397945003806 active site 397945003807 putative oxyanion hole; other site 397945003808 catalytic triad [active] 397945003809 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 397945003810 Flavoprotein; Region: Flavoprotein; pfam02441 397945003811 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 397945003812 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 397945003813 trimer interface [polypeptide binding]; other site 397945003814 active site 397945003815 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 397945003816 Uncharacterized conserved protein [Function unknown]; Region: COG2850 397945003817 Cupin-like domain; Region: Cupin_8; pfam13621 397945003818 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 397945003819 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 397945003820 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 397945003821 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 397945003822 dihydrodipicolinate synthase; Region: dapA; TIGR00674 397945003823 dimer interface [polypeptide binding]; other site 397945003824 active site 397945003825 catalytic residue [active] 397945003826 Methyltransferase domain; Region: Methyltransf_23; pfam13489 397945003827 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 397945003828 S-adenosylmethionine binding site [chemical binding]; other site 397945003829 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945003830 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 397945003831 putative substrate translocation pore; other site 397945003832 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 397945003833 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 397945003834 ATP binding site [chemical binding]; other site 397945003835 Mg2+ binding site [ion binding]; other site 397945003836 G-X-G motif; other site 397945003837 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 397945003838 anchoring element; other site 397945003839 dimer interface [polypeptide binding]; other site 397945003840 ATP binding site [chemical binding]; other site 397945003841 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 397945003842 active site 397945003843 metal binding site [ion binding]; metal-binding site 397945003844 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 397945003845 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 397945003846 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 397945003847 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945003848 catalytic residue [active] 397945003849 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 397945003850 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 397945003851 CAP-like domain; other site 397945003852 active site 397945003853 primary dimer interface [polypeptide binding]; other site 397945003854 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945003855 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003856 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003857 dimer interface [polypeptide binding]; other site 397945003858 putative CheW interface [polypeptide binding]; other site 397945003859 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003860 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003861 dimer interface [polypeptide binding]; other site 397945003862 putative CheW interface [polypeptide binding]; other site 397945003863 pyridoxamine kinase; Validated; Region: PRK05756 397945003864 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 397945003865 pyridoxal binding site [chemical binding]; other site 397945003866 dimer interface [polypeptide binding]; other site 397945003867 ATP binding site [chemical binding]; other site 397945003868 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 397945003869 homotrimer interaction site [polypeptide binding]; other site 397945003870 putative active site [active] 397945003871 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 397945003872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 397945003873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 397945003874 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 397945003875 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 397945003876 Competence protein; Region: Competence; pfam03772 397945003877 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 397945003878 Uncharacterized conserved protein [Function unknown]; Region: COG2308 397945003879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 397945003880 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 397945003881 S-adenosyl-L-homocysteine hydrolase, NAD binding domain; Region: AdoHcyase_NAD; smart00997 397945003882 NAD binding site [chemical binding]; other site 397945003883 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 397945003884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945003885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945003886 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 397945003887 putative effector binding pocket; other site 397945003888 putative dimerization interface [polypeptide binding]; other site 397945003889 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 397945003890 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945003891 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945003892 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945003893 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 397945003894 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945003895 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945003896 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 397945003897 tetramerization interface [polypeptide binding]; other site 397945003898 NAD(P) binding site [chemical binding]; other site 397945003899 catalytic residues [active] 397945003900 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 397945003901 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 397945003902 N-terminal plug; other site 397945003903 ligand-binding site [chemical binding]; other site 397945003904 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 397945003905 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945003906 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 397945003907 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 397945003908 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 397945003909 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 397945003910 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 397945003911 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 397945003912 heme binding site [chemical binding]; other site 397945003913 ferroxidase pore; other site 397945003914 ferroxidase diiron center [ion binding]; other site 397945003915 peroxiredoxin; Region: AhpC; TIGR03137 397945003916 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 397945003917 dimer interface [polypeptide binding]; other site 397945003918 decamer (pentamer of dimers) interface [polypeptide binding]; other site 397945003919 catalytic triad [active] 397945003920 peroxidatic and resolving cysteines [active] 397945003921 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 397945003922 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 397945003923 catalytic residue [active] 397945003924 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 397945003925 catalytic residues [active] 397945003926 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945003927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945003928 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 397945003929 Phosphoesterase family; Region: Phosphoesterase; pfam04185 397945003930 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945003931 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945003932 Restriction endonuclease; Region: Mrr_cat; pfam04471 397945003933 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 397945003934 PEP synthetase regulatory protein; Provisional; Region: PRK05339 397945003935 phosphoenolpyruvate synthase; Validated; Region: PRK06464 397945003936 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 397945003937 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 397945003938 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 397945003939 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 397945003940 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 397945003941 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 397945003942 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 397945003943 TIGR03118 family protein; Region: PEPCTERM_chp_1 397945003944 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 397945003945 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 397945003946 dimerization interface [polypeptide binding]; other site 397945003947 putative DNA binding site [nucleotide binding]; other site 397945003948 Predicted transcriptional regulators [Transcription]; Region: COG1733 397945003949 putative Zn2+ binding site [ion binding]; other site 397945003950 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945003951 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945003952 aromatic amino acid exporter; Provisional; Region: PRK11689 397945003953 VirK protein; Region: VirK; pfam06903 397945003954 cell density-dependent motility repressor; Provisional; Region: PRK10082 397945003955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945003956 LysR substrate binding domain; Region: LysR_substrate; pfam03466 397945003957 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945003958 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 397945003959 inhibitor site; inhibition site 397945003960 active site 397945003961 dimer interface [polypeptide binding]; other site 397945003962 catalytic residue [active] 397945003963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945003964 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945003965 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945003966 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945003967 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 397945003968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003969 classical (c) SDRs; Region: SDR_c; cd05233 397945003970 NAD(P) binding site [chemical binding]; other site 397945003971 active site 397945003972 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 397945003973 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 397945003974 putative active site pocket [active] 397945003975 metal binding site [ion binding]; metal-binding site 397945003976 AAA domain; Region: AAA_21; pfam13304 397945003977 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945003978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945003979 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945003980 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945003981 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 397945003982 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 397945003983 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 397945003984 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945003985 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 397945003986 dimerization interface [polypeptide binding]; other site 397945003987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003989 dimer interface [polypeptide binding]; other site 397945003990 putative CheW interface [polypeptide binding]; other site 397945003991 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 397945003992 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 397945003993 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 397945003994 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 397945003995 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945003996 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 397945003997 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 397945003998 DNA binding residues [nucleotide binding] 397945003999 DNA primase, catalytic core; Region: dnaG; TIGR01391 397945004000 CHC2 zinc finger; Region: zf-CHC2; pfam01807 397945004001 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 397945004002 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 397945004003 active site 397945004004 metal binding site [ion binding]; metal-binding site 397945004005 interdomain interaction site; other site 397945004006 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 397945004007 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 397945004008 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945004009 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 397945004010 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 397945004011 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945004012 PhoD-like phosphatase; Region: PhoD; pfam09423 397945004013 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 397945004014 putative active site [active] 397945004015 putative metal binding site [ion binding]; other site 397945004016 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 397945004017 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945004018 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945004019 metal binding site [ion binding]; metal-binding site 397945004020 active site 397945004021 I-site; other site 397945004022 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 397945004023 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 397945004024 NAD(P) binding site [chemical binding]; other site 397945004025 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 397945004026 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 397945004027 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 397945004028 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945004029 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945004030 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 397945004031 RNA binding surface [nucleotide binding]; other site 397945004032 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 397945004033 active site 397945004034 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 397945004035 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945004036 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 397945004037 RNA binding surface [nucleotide binding]; other site 397945004038 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 397945004039 probable active site [active] 397945004040 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 397945004041 active site 397945004042 multimer interface [polypeptide binding]; other site 397945004043 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 397945004044 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 397945004045 FeS/SAM binding site; other site 397945004046 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 397945004047 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 397945004048 binding surface 397945004049 TPR motif; other site 397945004050 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 397945004051 binding surface 397945004052 TPR motif; other site 397945004053 Helix-turn-helix domain; Region: HTH_25; pfam13413 397945004054 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 397945004055 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 397945004056 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 397945004057 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 397945004058 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 397945004059 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 397945004060 dimer interface [polypeptide binding]; other site 397945004061 motif 1; other site 397945004062 active site 397945004063 motif 2; other site 397945004064 motif 3; other site 397945004065 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 397945004066 anticodon binding site; other site 397945004067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 397945004068 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 397945004069 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 397945004070 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 397945004071 Trp docking motif [polypeptide binding]; other site 397945004072 active site 397945004073 GTP-binding protein Der; Reviewed; Region: PRK00093 397945004074 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 397945004075 G1 box; other site 397945004076 GTP/Mg2+ binding site [chemical binding]; other site 397945004077 Switch I region; other site 397945004078 G2 box; other site 397945004079 Switch II region; other site 397945004080 G3 box; other site 397945004081 G4 box; other site 397945004082 G5 box; other site 397945004083 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 397945004084 G1 box; other site 397945004085 GTP/Mg2+ binding site [chemical binding]; other site 397945004086 Switch I region; other site 397945004087 G2 box; other site 397945004088 G3 box; other site 397945004089 Switch II region; other site 397945004090 G4 box; other site 397945004091 G5 box; other site 397945004092 bacterial Hfq-like; Region: Hfq; cd01716 397945004093 hexamer interface [polypeptide binding]; other site 397945004094 Sm1 motif; other site 397945004095 RNA binding site [nucleotide binding]; other site 397945004096 Sm2 motif; other site 397945004097 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 397945004098 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 397945004099 HflX GTPase family; Region: HflX; cd01878 397945004100 G1 box; other site 397945004101 GTP/Mg2+ binding site [chemical binding]; other site 397945004102 Switch I region; other site 397945004103 G2 box; other site 397945004104 G3 box; other site 397945004105 Switch II region; other site 397945004106 G4 box; other site 397945004107 G5 box; other site 397945004108 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 397945004109 HflK protein; Region: hflK; TIGR01933 397945004110 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 397945004111 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 397945004112 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 397945004113 dimer interface [polypeptide binding]; other site 397945004114 motif 1; other site 397945004115 active site 397945004116 motif 2; other site 397945004117 motif 3; other site 397945004118 adenylosuccinate synthetase; Provisional; Region: PRK01117 397945004119 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 397945004120 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 397945004121 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945004122 active site 397945004123 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945004124 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 397945004125 active site 397945004126 uracil binding [chemical binding]; other site 397945004127 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 397945004128 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 397945004129 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 397945004130 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 397945004131 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 397945004132 NodB motif; other site 397945004133 active site 397945004134 catalytic site [active] 397945004135 metal binding site [ion binding]; metal-binding site 397945004136 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 397945004137 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 397945004138 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 397945004139 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 397945004140 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 397945004141 putative MPT binding site; other site 397945004142 glutamine synthetase; Provisional; Region: glnA; PRK09469 397945004143 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 397945004144 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 397945004145 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945004146 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 397945004147 dimer interface [polypeptide binding]; other site 397945004148 phosphorylation site [posttranslational modification] 397945004149 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 397945004150 ATP binding site [chemical binding]; other site 397945004151 Mg2+ binding site [ion binding]; other site 397945004152 G-X-G motif; other site 397945004153 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 397945004154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945004155 active site 397945004156 phosphorylation site [posttranslational modification] 397945004157 intermolecular recognition site; other site 397945004158 dimerization interface [polypeptide binding]; other site 397945004159 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 397945004160 Walker A motif; other site 397945004161 ATP binding site [chemical binding]; other site 397945004162 Walker B motif; other site 397945004163 arginine finger; other site 397945004164 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945004165 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 397945004166 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 397945004167 putative catalytic site [active] 397945004168 putative phosphate binding site [ion binding]; other site 397945004169 active site 397945004170 metal binding site A [ion binding]; metal-binding site 397945004171 DNA binding site [nucleotide binding] 397945004172 putative AP binding site [nucleotide binding]; other site 397945004173 putative metal binding site B [ion binding]; other site 397945004174 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 397945004175 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 397945004176 folate binding site [chemical binding]; other site 397945004177 NADP+ binding site [chemical binding]; other site 397945004178 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 397945004179 thymidylate synthase; Reviewed; Region: thyA; PRK01827 397945004180 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 397945004181 dimerization interface [polypeptide binding]; other site 397945004182 active site 397945004183 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945004184 FAD binding domain; Region: FAD_binding_4; pfam01565 397945004185 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 397945004186 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 397945004187 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 397945004188 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 397945004189 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 397945004190 catalytic residues [active] 397945004191 substrate binding pocket [chemical binding]; other site 397945004192 substrate-Mg2+ binding site; other site 397945004193 aspartate-rich region 1; other site 397945004194 aspartate-rich region 2; other site 397945004195 Found in ATP-dependent protease La (LON); Region: LON; smart00464 397945004196 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 397945004197 Found in ATP-dependent protease La (LON); Region: LON; smart00464 397945004198 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 397945004199 Walker A motif; other site 397945004200 ATP binding site [chemical binding]; other site 397945004201 Walker B motif; other site 397945004202 arginine finger; other site 397945004203 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 397945004204 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 397945004205 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 397945004206 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 397945004207 Walker A motif; other site 397945004208 ATP binding site [chemical binding]; other site 397945004209 Walker B motif; other site 397945004210 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 397945004211 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 397945004212 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 397945004213 oligomer interface [polypeptide binding]; other site 397945004214 active site residues [active] 397945004215 trigger factor; Provisional; Region: tig; PRK01490 397945004216 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 397945004217 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 397945004218 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 397945004219 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945004220 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945004221 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945004222 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 397945004223 active site lid residues [active] 397945004224 substrate binding pocket [chemical binding]; other site 397945004225 catalytic residues [active] 397945004226 substrate-Mg2+ binding site; other site 397945004227 aspartate-rich region 1; other site 397945004228 aspartate-rich region 2; other site 397945004229 Protein of unknown function (DUF796); Region: DUF796; pfam05638 397945004230 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945004231 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945004232 active site 397945004233 ATP binding site [chemical binding]; other site 397945004234 substrate binding site [chemical binding]; other site 397945004235 activation loop (A-loop); other site 397945004236 PEGA domain; Region: PEGA; pfam08308 397945004237 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 397945004238 TPR motif; other site 397945004239 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945004240 phosphopeptide binding site; other site 397945004241 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 397945004242 active site 397945004243 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 397945004244 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 397945004245 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 397945004246 hypothetical protein; Provisional; Region: PRK07033 397945004247 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 397945004248 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945004249 ligand binding site [chemical binding]; other site 397945004250 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 397945004251 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 397945004252 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 397945004253 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 397945004254 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 397945004255 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 397945004256 Protein of unknown function (DUF770); Region: DUF770; pfam05591 397945004257 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 397945004258 Protein of unknown function (DUF877); Region: DUF877; pfam05943 397945004259 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 397945004260 ImpE protein; Region: ImpE; pfam07024 397945004261 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 397945004262 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 397945004263 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 397945004264 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 397945004265 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 397945004266 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 397945004267 Walker A motif; other site 397945004268 ATP binding site [chemical binding]; other site 397945004269 Walker B motif; other site 397945004270 arginine finger; other site 397945004271 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 397945004272 Walker A motif; other site 397945004273 ATP binding site [chemical binding]; other site 397945004274 Walker B motif; other site 397945004275 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 397945004276 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 397945004277 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 397945004278 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 397945004279 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945004280 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 397945004281 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 397945004282 glutamate racemase; Provisional; Region: PRK00865 397945004283 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 397945004284 Fumarase C-terminus; Region: Fumerase_C; pfam05683 397945004285 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 397945004286 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945004287 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945004288 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945004289 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945004290 metal binding site [ion binding]; metal-binding site 397945004291 active site 397945004292 I-site; other site 397945004293 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 397945004294 fumarate hydratase; Reviewed; Region: fumC; PRK00485 397945004295 Class II fumarases; Region: Fumarase_classII; cd01362 397945004296 active site 397945004297 tetramer interface [polypeptide binding]; other site 397945004298 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 397945004299 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 397945004300 active site 397945004301 DNA binding site [nucleotide binding] 397945004302 Int/Topo IB signature motif; other site 397945004303 catalytic residues [active] 397945004304 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 397945004305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945004306 active site 397945004307 phosphorylation site [posttranslational modification] 397945004308 intermolecular recognition site; other site 397945004309 dimerization interface [polypeptide binding]; other site 397945004310 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 397945004311 DNA binding site [nucleotide binding] 397945004312 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 397945004313 dimerization interface [polypeptide binding]; other site 397945004314 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 397945004315 dimer interface [polypeptide binding]; other site 397945004316 phosphorylation site [posttranslational modification] 397945004317 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 397945004318 ATP binding site [chemical binding]; other site 397945004319 Mg2+ binding site [ion binding]; other site 397945004320 G-X-G motif; other site 397945004321 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 397945004322 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 397945004323 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 397945004324 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 397945004325 dimer interface [polypeptide binding]; other site 397945004326 conserved gate region; other site 397945004327 putative PBP binding loops; other site 397945004328 ABC-ATPase subunit interface; other site 397945004329 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 397945004330 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 397945004331 Walker A/P-loop; other site 397945004332 ATP binding site [chemical binding]; other site 397945004333 Q-loop/lid; other site 397945004334 ABC transporter signature motif; other site 397945004335 Walker B; other site 397945004336 D-loop; other site 397945004337 H-loop/switch region; other site 397945004338 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 397945004339 hypothetical protein; Provisional; Region: PRK05208 397945004340 acetyl-CoA synthetase; Provisional; Region: PRK00174 397945004341 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 397945004342 active site 397945004343 CoA binding site [chemical binding]; other site 397945004344 acyl-activating enzyme (AAE) consensus motif; other site 397945004345 AMP binding site [chemical binding]; other site 397945004346 acetate binding site [chemical binding]; other site 397945004347 Cytochrome c; Region: Cytochrom_C; cl11414 397945004348 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 397945004349 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 397945004350 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 397945004351 heme binding site [chemical binding]; other site 397945004352 ferroxidase pore; other site 397945004353 ferroxidase diiron center [ion binding]; other site 397945004354 Leucine rich repeat; Region: LRR_8; pfam13855 397945004355 Fic/DOC family; Region: Fic; pfam02661 397945004356 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 397945004357 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945004358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945004359 DNA-binding site [nucleotide binding]; DNA binding site 397945004360 FCD domain; Region: FCD; pfam07729 397945004361 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 397945004362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945004363 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945004364 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945004365 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945004366 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 397945004367 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 397945004368 substrate binding site [chemical binding]; other site 397945004369 oxyanion hole (OAH) forming residues; other site 397945004370 trimer interface [polypeptide binding]; other site 397945004371 malonyl-CoA synthase; Validated; Region: PRK07514 397945004372 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 397945004373 acyl-activating enzyme (AAE) consensus motif; other site 397945004374 active site 397945004375 AMP binding site [chemical binding]; other site 397945004376 CoA binding site [chemical binding]; other site 397945004377 Fic/DOC family; Region: Fic; pfam02661 397945004378 Winged helix-turn helix; Region: HTH_29; pfam13551 397945004379 Homeodomain-like domain; Region: HTH_32; pfam13565 397945004380 Integrase core domain; Region: rve; pfam00665 397945004381 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945004382 Integrase core domain; Region: rve_3; pfam13683 397945004383 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 397945004384 Ligand Binding Site [chemical binding]; other site 397945004385 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 397945004386 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 397945004387 metal-binding site [ion binding] 397945004388 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945004389 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 397945004390 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 397945004391 Low-spin heme binding site [chemical binding]; other site 397945004392 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 397945004393 Putative water exit pathway; other site 397945004394 Binuclear center (active site) [active] 397945004395 Putative proton exit pathway; other site 397945004396 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 397945004397 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 397945004398 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 397945004399 VirB8 protein; Region: VirB8; cl01500 397945004400 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 397945004401 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 397945004402 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 397945004403 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 397945004404 4Fe-4S binding domain; Region: Fer4_5; pfam12801 397945004405 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 397945004406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 397945004407 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 397945004408 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 397945004409 ligand binding site [chemical binding]; other site 397945004410 flexible hinge region; other site 397945004411 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 397945004412 putative switch regulator; other site 397945004413 non-specific DNA interactions [nucleotide binding]; other site 397945004414 DNA binding site [nucleotide binding] 397945004415 sequence specific DNA binding site [nucleotide binding]; other site 397945004416 putative cAMP binding site [chemical binding]; other site 397945004417 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 397945004418 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 397945004419 FeS/SAM binding site; other site 397945004420 HemN C-terminal domain; Region: HemN_C; pfam06969 397945004421 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 397945004422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945004423 Zn2+ binding site [ion binding]; other site 397945004424 Mg2+ binding site [ion binding]; other site 397945004425 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 397945004426 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945004427 putative active site [active] 397945004428 heme pocket [chemical binding]; other site 397945004429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945004430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945004431 metal binding site [ion binding]; metal-binding site 397945004432 active site 397945004433 I-site; other site 397945004434 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 397945004435 Cell division protein ZapA; Region: ZapA; pfam05164 397945004436 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 397945004437 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 397945004438 N-terminal plug; other site 397945004439 ligand-binding site [chemical binding]; other site 397945004440 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 397945004441 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 397945004442 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 397945004443 catalytic triad [active] 397945004444 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 397945004445 homotrimer interface [polypeptide binding]; other site 397945004446 Walker A motif; other site 397945004447 GTP binding site [chemical binding]; other site 397945004448 Walker B motif; other site 397945004449 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 397945004450 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 397945004451 intersubunit interface [polypeptide binding]; other site 397945004452 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 397945004453 dimer interface [polypeptide binding]; other site 397945004454 putative PBP binding regions; other site 397945004455 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 397945004456 ABC-ATPase subunit interface; other site 397945004457 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 397945004458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945004459 Walker A/P-loop; other site 397945004460 ATP binding site [chemical binding]; other site 397945004461 Q-loop/lid; other site 397945004462 ABC transporter signature motif; other site 397945004463 Walker B; other site 397945004464 D-loop; other site 397945004465 H-loop/switch region; other site 397945004466 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 397945004467 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 397945004468 homodimer interface [polypeptide binding]; other site 397945004469 Walker A motif; other site 397945004470 ATP binding site [chemical binding]; other site 397945004471 hydroxycobalamin binding site [chemical binding]; other site 397945004472 Walker B motif; other site 397945004473 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 397945004474 putative FMN binding site [chemical binding]; other site 397945004475 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 397945004476 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 397945004477 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 397945004478 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945004479 catalytic residue [active] 397945004480 PLD-like domain; Region: PLDc_2; pfam13091 397945004481 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 397945004482 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 397945004483 classical (c) SDRs; Region: SDR_c; cd05233 397945004484 NAD(P) binding site [chemical binding]; other site 397945004485 active site 397945004486 cobyric acid synthase; Provisional; Region: PRK00784 397945004487 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 397945004488 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 397945004489 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 397945004490 catalytic triad [active] 397945004491 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 397945004492 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 397945004493 putative dimer interface [polypeptide binding]; other site 397945004494 active site pocket [active] 397945004495 putative cataytic base [active] 397945004496 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945004497 Transposase domain (DUF772); Region: DUF772; pfam05598 397945004498 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 397945004499 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 397945004500 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 397945004501 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 397945004502 putative substrate translocation pore; other site 397945004503 tellurite resistance protein terB; Region: terB; cd07176 397945004504 putative metal binding site [ion binding]; other site 397945004505 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 397945004506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945004507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 397945004508 Coenzyme A binding pocket [chemical binding]; other site 397945004509 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 397945004510 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945004511 minor groove reading motif; other site 397945004512 helix-hairpin-helix signature motif; other site 397945004513 substrate binding pocket [chemical binding]; other site 397945004514 active site 397945004515 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 397945004516 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 397945004517 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 397945004518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945004519 homodimer interface [polypeptide binding]; other site 397945004520 catalytic residue [active] 397945004521 SlyX; Region: SlyX; pfam04102 397945004522 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 397945004523 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945004524 active site 397945004525 catalytic tetrad [active] 397945004526 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 397945004527 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945004528 ATP binding site [chemical binding]; other site 397945004529 Mg++ binding site [ion binding]; other site 397945004530 motif III; other site 397945004531 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 397945004532 nucleotide binding region [chemical binding]; other site 397945004533 ATP-binding site [chemical binding]; other site 397945004534 translation initiation factor Sui1; Validated; Region: PRK06824 397945004535 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 397945004536 putative rRNA binding site [nucleotide binding]; other site 397945004537 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 397945004538 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 397945004539 heme-binding site [chemical binding]; other site 397945004540 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 397945004541 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 397945004542 Hemerythrin-like domain; Region: Hr-like; cd12108 397945004543 Fe binding site [ion binding]; other site 397945004544 Transcriptional regulator; Region: Rrf2; cl17282 397945004545 Rrf2 family protein; Region: rrf2_super; TIGR00738 397945004546 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 397945004547 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945004548 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 397945004549 dimerization interface [polypeptide binding]; other site 397945004550 Lysine efflux permease [General function prediction only]; Region: COG1279 397945004551 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 397945004552 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 397945004553 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 397945004554 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 397945004555 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 397945004556 motif II; other site 397945004557 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945004558 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 397945004559 DNA binding residues [nucleotide binding] 397945004560 dimerization interface [polypeptide binding]; other site 397945004561 Tannase and feruloyl esterase; Region: Tannase; pfam07519 397945004562 Predicted membrane protein [Function unknown]; Region: COG3235 397945004563 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 397945004564 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 397945004565 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 397945004566 ATP binding site [chemical binding]; other site 397945004567 putative Mg++ binding site [ion binding]; other site 397945004568 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 397945004569 nucleotide binding region [chemical binding]; other site 397945004570 ATP-binding site [chemical binding]; other site 397945004571 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 397945004572 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 397945004573 substrate binding site; other site 397945004574 dimer interface; other site 397945004575 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 397945004576 homotrimer interaction site [polypeptide binding]; other site 397945004577 zinc binding site [ion binding]; other site 397945004578 CDP-binding sites; other site 397945004579 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 397945004580 dimerization interface [polypeptide binding]; other site 397945004581 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 397945004582 dimer interface [polypeptide binding]; other site 397945004583 phosphorylation site [posttranslational modification] 397945004584 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 397945004585 ATP binding site [chemical binding]; other site 397945004586 Mg2+ binding site [ion binding]; other site 397945004587 G-X-G motif; other site 397945004588 osmolarity response regulator; Provisional; Region: ompR; PRK09468 397945004589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945004590 active site 397945004591 phosphorylation site [posttranslational modification] 397945004592 intermolecular recognition site; other site 397945004593 dimerization interface [polypeptide binding]; other site 397945004594 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 397945004595 DNA binding site [nucleotide binding] 397945004596 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 397945004597 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 397945004598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004599 NAD(P) binding site [chemical binding]; other site 397945004600 active site 397945004601 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 397945004602 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 397945004603 HD domain; Region: HD_4; pfam13328 397945004604 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 397945004605 synthetase active site [active] 397945004606 NTP binding site [chemical binding]; other site 397945004607 metal binding site [ion binding]; metal-binding site 397945004608 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 397945004609 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 397945004610 OsmC-like protein; Region: OsmC; cl00767 397945004611 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 397945004612 intracellular protease, PfpI family; Region: PfpI; TIGR01382 397945004613 proposed catalytic triad [active] 397945004614 conserved cys residue [active] 397945004615 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 397945004616 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 397945004617 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 397945004618 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 397945004619 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 397945004620 ParB-like nuclease domain; Region: ParBc; pfam02195 397945004621 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 397945004622 non-specific DNA binding site [nucleotide binding]; other site 397945004623 salt bridge; other site 397945004624 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 397945004625 sequence-specific DNA binding site [nucleotide binding]; other site 397945004626 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 397945004627 Catalytic site [active] 397945004628 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 397945004629 active site 397945004630 metal binding site [ion binding]; metal-binding site 397945004631 interdomain interaction site; other site 397945004632 Virulence-associated protein E; Region: VirE; pfam05272 397945004633 Phage terminase, small subunit; Region: Terminase_4; cl01525 397945004634 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 397945004635 Phage-related protein [Function unknown]; Region: COG4695; cl01923 397945004636 Phage portal protein; Region: Phage_portal; pfam04860 397945004637 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 397945004638 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 397945004639 tandem repeat interface [polypeptide binding]; other site 397945004640 oligomer interface [polypeptide binding]; other site 397945004641 active site residues [active] 397945004642 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 397945004643 Phage capsid family; Region: Phage_capsid; pfam05065 397945004644 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 397945004645 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 397945004646 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 397945004647 Phage tail protein; Region: Phage_tail_3; pfam08813 397945004648 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 397945004649 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 397945004650 Phage-related minor tail protein [Function unknown]; Region: COG5281 397945004651 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 397945004652 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 397945004653 virion protein; Provisional; Region: V; PHA02564 397945004654 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 397945004655 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 397945004656 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 397945004657 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 397945004658 catalytic residues [active] 397945004659 catalytic nucleophile [active] 397945004660 Recombinase; Region: Recombinase; pfam07508 397945004661 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 397945004662 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 397945004663 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 397945004664 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 397945004665 FeS/SAM binding site; other site 397945004666 citrate-proton symporter; Provisional; Region: PRK15075 397945004667 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 397945004668 putative substrate translocation pore; other site 397945004669 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 397945004670 active site 397945004671 ADP-ribosylating toxin turn-turn motif; other site 397945004672 elongation factor P; Validated; Region: PRK00529 397945004673 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 397945004674 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 397945004675 RNA binding site [nucleotide binding]; other site 397945004676 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 397945004677 RNA binding site [nucleotide binding]; other site 397945004678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 397945004679 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 397945004680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945004681 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 397945004682 putative dimerization interface [polypeptide binding]; other site 397945004683 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945004684 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945004685 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 397945004686 active site 397945004687 catalytic residues [active] 397945004688 metal binding site [ion binding]; metal-binding site 397945004689 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945004690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945004691 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 397945004692 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 397945004693 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 397945004694 putative active site [active] 397945004695 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 397945004696 catalytic nucleophile [active] 397945004697 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 397945004698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945004699 Walker A/P-loop; other site 397945004700 ATP binding site [chemical binding]; other site 397945004701 Q-loop/lid; other site 397945004702 ABC transporter signature motif; other site 397945004703 Walker B; other site 397945004704 D-loop; other site 397945004705 H-loop/switch region; other site 397945004706 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 397945004707 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945004708 Walker A/P-loop; other site 397945004709 ATP binding site [chemical binding]; other site 397945004710 Q-loop/lid; other site 397945004711 ABC transporter signature motif; other site 397945004712 Walker B; other site 397945004713 D-loop; other site 397945004714 H-loop/switch region; other site 397945004715 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945004716 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 397945004717 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 397945004718 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 397945004719 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 397945004720 dimer interface [polypeptide binding]; other site 397945004721 conserved gate region; other site 397945004722 putative PBP binding loops; other site 397945004723 ABC-ATPase subunit interface; other site 397945004724 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 397945004725 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 397945004726 dimer interface [polypeptide binding]; other site 397945004727 conserved gate region; other site 397945004728 putative PBP binding loops; other site 397945004729 ABC-ATPase subunit interface; other site 397945004730 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 397945004731 homodimer interface [polypeptide binding]; other site 397945004732 homotetramer interface [polypeptide binding]; other site 397945004733 active site pocket [active] 397945004734 cleavage site 397945004735 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 397945004736 SxDxEG motif; other site 397945004737 active site 397945004738 metal binding site [ion binding]; metal-binding site 397945004739 homopentamer interface [polypeptide binding]; other site 397945004740 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945004741 aspartate racemase; Region: asp_race; TIGR00035 397945004742 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 397945004743 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 397945004744 GIY-YIG motif/motif A; other site 397945004745 active site 397945004746 catalytic site [active] 397945004747 putative DNA binding site [nucleotide binding]; other site 397945004748 metal binding site [ion binding]; metal-binding site 397945004749 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 397945004750 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 397945004751 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 397945004752 IHF dimer interface [polypeptide binding]; other site 397945004753 IHF - DNA interface [nucleotide binding]; other site 397945004754 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 397945004755 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 397945004756 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 397945004757 active site 397945004758 DNA binding site [nucleotide binding] 397945004759 Int/Topo IB signature motif; other site 397945004760 HD domain; Region: HD_3; cl17350 397945004761 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 397945004762 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 397945004763 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 397945004764 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 397945004765 cofactor binding site; other site 397945004766 DNA binding site [nucleotide binding] 397945004767 substrate interaction site [chemical binding]; other site 397945004768 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 397945004769 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 397945004770 DNA methylase; Region: N6_N4_Mtase; cl17433 397945004771 DNA methylase; Region: N6_N4_Mtase; cl17433 397945004772 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 397945004773 non-specific DNA binding site [nucleotide binding]; other site 397945004774 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945004775 salt bridge; other site 397945004776 sequence-specific DNA binding site [nucleotide binding]; other site 397945004777 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 397945004778 Catalytic site [active] 397945004779 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 397945004780 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 397945004781 non-specific DNA binding site [nucleotide binding]; other site 397945004782 salt bridge; other site 397945004783 sequence-specific DNA binding site [nucleotide binding]; other site 397945004784 L-serine deaminase; Provisional; Region: PRK15023 397945004785 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 397945004786 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 397945004787 Helix-turn-helix domain; Region: HTH_36; pfam13730 397945004788 N-terminal catalytic GIY-YIG domain of bacteriophage T4 segABCDEFG gene encoding proteins; Region: GIY-YIG_SegABCDEFG; cd10444 397945004789 GIY-YIG motif/motif A; other site 397945004790 putative active site [active] 397945004791 putative metal binding site [ion binding]; other site 397945004792 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 397945004793 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 397945004794 Terminase small subunit; Region: Terminase_2; pfam03592 397945004795 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 397945004796 Competence protein CoiA-like family; Region: CoiA; cl11541 397945004797 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 397945004798 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 397945004799 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945004800 Arc-like DNA binding domain; Region: Arc; pfam03869 397945004801 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 397945004802 ORF6C domain; Region: ORF6C; pfam10552 397945004803 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 397945004804 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 397945004805 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 397945004806 periplasmic folding chaperone; Provisional; Region: PRK10788 397945004807 SurA N-terminal domain; Region: SurA_N_3; cl07813 397945004808 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 397945004809 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 397945004810 active site 397945004811 catalytic residues [active] 397945004812 DNA binding site [nucleotide binding] 397945004813 Int/Topo IB signature motif; other site 397945004814 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 397945004815 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 397945004816 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 397945004817 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 397945004818 cofactor binding site; other site 397945004819 DNA binding site [nucleotide binding] 397945004820 substrate interaction site [chemical binding]; other site 397945004821 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 397945004822 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 397945004823 DNA methylase; Region: N6_N4_Mtase; cl17433 397945004824 DNA methylase; Region: N6_N4_Mtase; cl17433 397945004825 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 397945004826 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 397945004827 sequence-specific DNA binding site [nucleotide binding]; other site 397945004828 salt bridge; other site 397945004829 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 397945004830 Catalytic site [active] 397945004831 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 397945004832 Protein of unknown function (DUF968); Region: DUF968; pfam06147 397945004833 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 397945004834 active site 397945004835 Phage Terminase; Region: Terminase_1; pfam03354 397945004836 Phage-related protein [Function unknown]; Region: COG4695; cl01923 397945004837 Phage portal protein; Region: Phage_portal; pfam04860 397945004838 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 397945004839 oligomerization interface [polypeptide binding]; other site 397945004840 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 397945004841 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 397945004842 putative NHN endonuclease; Region: PHA00280 397945004843 HNH endonuclease; Region: HNH_3; pfam13392 397945004844 Phage tail protein; Region: Phage_tail_3; pfam08813 397945004845 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 397945004846 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 397945004847 Phage-related minor tail protein [Function unknown]; Region: COG5281 397945004848 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 397945004849 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 397945004850 virion protein; Provisional; Region: V; PHA02564 397945004851 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 397945004852 non-specific DNA binding site [nucleotide binding]; other site 397945004853 salt bridge; other site 397945004854 sequence-specific DNA binding site [nucleotide binding]; other site 397945004855 putative cation:proton antiport protein; Provisional; Region: PRK10669 397945004856 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945004857 TrkA-N domain; Region: TrkA_N; pfam02254 397945004858 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 397945004859 active site 397945004860 Zn binding site [ion binding]; other site 397945004861 helicase 45; Provisional; Region: PTZ00424 397945004862 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 397945004863 ATP binding site [chemical binding]; other site 397945004864 Mg++ binding site [ion binding]; other site 397945004865 motif III; other site 397945004866 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 397945004867 nucleotide binding region [chemical binding]; other site 397945004868 ATP-binding site [chemical binding]; other site 397945004869 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945004870 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945004871 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945004872 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945004873 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 397945004874 gamma subunit interface [polypeptide binding]; other site 397945004875 epsilon subunit interface [polypeptide binding]; other site 397945004876 LBP interface [polypeptide binding]; other site 397945004877 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 397945004878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945004879 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945004880 ABC transporter; Region: ABC_tran_2; pfam12848 397945004881 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945004882 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 397945004883 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 397945004884 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 397945004885 putative active site pocket [active] 397945004886 cleavage site 397945004887 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 397945004888 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 397945004889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945004890 transcriptional activator TtdR; Provisional; Region: PRK09801 397945004891 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 397945004892 putative effector binding pocket; other site 397945004893 dimerization interface [polypeptide binding]; other site 397945004894 Predicted metal-binding protein [General function prediction only]; Region: COG3019 397945004895 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 397945004896 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 397945004897 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 397945004898 Uncharacterized conserved protein [Function unknown]; Region: COG1284 397945004899 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945004900 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 397945004901 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945004902 Soluble P-type ATPase [General function prediction only]; Region: COG4087 397945004903 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 397945004904 DNA binding residues [nucleotide binding] 397945004905 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 397945004906 dimer interface [polypeptide binding]; other site 397945004907 putative metal binding site [ion binding]; other site 397945004908 Permease; Region: Permease; pfam02405 397945004909 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 397945004910 mce related protein; Region: MCE; pfam02470 397945004911 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 397945004912 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 397945004913 putative substrate binding site [chemical binding]; other site 397945004914 putative ATP binding site [chemical binding]; other site 397945004915 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945004916 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945004917 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 397945004918 rRNA interaction site [nucleotide binding]; other site 397945004919 S8 interaction site; other site 397945004920 putative laminin-1 binding site; other site 397945004921 elongation factor Ts; Provisional; Region: tsf; PRK09377 397945004922 UBA/TS-N domain; Region: UBA; pfam00627 397945004923 Elongation factor TS; Region: EF_TS; pfam00889 397945004924 Elongation factor TS; Region: EF_TS; pfam00889 397945004925 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 397945004926 putative nucleotide binding site [chemical binding]; other site 397945004927 uridine monophosphate binding site [chemical binding]; other site 397945004928 homohexameric interface [polypeptide binding]; other site 397945004929 ribosome recycling factor; Reviewed; Region: frr; PRK00083 397945004930 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 397945004931 hinge region; other site 397945004932 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 397945004933 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 397945004934 catalytic residue [active] 397945004935 putative FPP diphosphate binding site; other site 397945004936 putative FPP binding hydrophobic cleft; other site 397945004937 dimer interface [polypeptide binding]; other site 397945004938 putative IPP diphosphate binding site; other site 397945004939 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 397945004940 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 397945004941 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 397945004942 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 397945004943 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 397945004944 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 397945004945 zinc metallopeptidase RseP; Provisional; Region: PRK10779 397945004946 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 397945004947 active site 397945004948 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 397945004949 protein binding site [polypeptide binding]; other site 397945004950 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 397945004951 putative substrate binding region [chemical binding]; other site 397945004952 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 397945004953 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 397945004954 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 397945004955 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 397945004956 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 397945004957 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 397945004958 Surface antigen; Region: Bac_surface_Ag; pfam01103 397945004959 periplasmic chaperone; Provisional; Region: PRK10780 397945004960 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 397945004961 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 397945004962 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 397945004963 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 397945004964 trimer interface [polypeptide binding]; other site 397945004965 active site 397945004966 UDP-GlcNAc binding site [chemical binding]; other site 397945004967 lipid binding site [chemical binding]; lipid-binding site 397945004968 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 397945004969 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 397945004970 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 397945004971 active site 397945004972 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 397945004973 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 397945004974 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 397945004975 RNA/DNA hybrid binding site [nucleotide binding]; other site 397945004976 active site 397945004977 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 397945004978 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 397945004979 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945004980 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945004981 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945004982 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945004983 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945004984 active site 397945004985 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 397945004986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945004987 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 397945004988 putative dimerization interface [polypeptide binding]; other site 397945004989 putative substrate binding pocket [chemical binding]; other site 397945004990 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 397945004991 AMP binding site [chemical binding]; other site 397945004992 metal binding site [ion binding]; metal-binding site 397945004993 active site 397945004994 aminopeptidase N; Provisional; Region: pepN; PRK14015 397945004995 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 397945004996 active site 397945004997 Zn binding site [ion binding]; other site 397945004998 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 397945004999 Predicted ATPase [General function prediction only]; Region: COG4637 397945005000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945005001 Walker A/P-loop; other site 397945005002 ATP binding site [chemical binding]; other site 397945005003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945005004 ABC transporter signature motif; other site 397945005005 Walker B; other site 397945005006 D-loop; other site 397945005007 H-loop/switch region; other site 397945005008 This domain is found in peptide chain release factors; Region: PCRF; smart00937 397945005009 peptide chain release factor 2; Provisional; Region: PRK08787 397945005010 RF-1 domain; Region: RF-1; pfam00472 397945005011 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 397945005012 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 397945005013 putative DNA binding site [nucleotide binding]; other site 397945005014 catalytic residue [active] 397945005015 putative H2TH interface [polypeptide binding]; other site 397945005016 putative catalytic residues [active] 397945005017 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 397945005018 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 397945005019 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945005020 active site 397945005021 catalytic tetrad [active] 397945005022 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 397945005023 putative deacylase active site [active] 397945005024 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 397945005025 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 397945005026 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 397945005027 catalytic motif [active] 397945005028 Catalytic residue [active] 397945005029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 397945005030 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 397945005031 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 397945005032 FAD binding domain; Region: FAD_binding_4; pfam01565 397945005033 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 397945005034 argininosuccinate synthase; Validated; Region: PRK05370 397945005035 argininosuccinate synthase; Provisional; Region: PRK13820 397945005036 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 397945005037 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 397945005038 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 397945005039 ArsC family; Region: ArsC; pfam03960 397945005040 putative catalytic residues [active] 397945005041 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 397945005042 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945005043 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945005044 Sporulation related domain; Region: SPOR; pfam05036 397945005045 Colicin V production protein; Region: Colicin_V; pfam02674 397945005046 amidophosphoribosyltransferase; Provisional; Region: PRK09246 397945005047 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 397945005048 active site 397945005049 tetramer interface [polypeptide binding]; other site 397945005050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945005051 active site 397945005052 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 397945005053 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 397945005054 homodimer interface [polypeptide binding]; other site 397945005055 substrate-cofactor binding pocket; other site 397945005056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945005057 catalytic residue [active] 397945005058 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 397945005059 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 397945005060 active site 397945005061 HIGH motif; other site 397945005062 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 397945005063 active site 397945005064 KMSKS motif; other site 397945005065 Predicted membrane protein [Function unknown]; Region: COG3503 397945005066 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 397945005067 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 397945005068 putative substrate translocation pore; other site 397945005069 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 397945005070 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 397945005071 putative substrate translocation pore; other site 397945005072 Protein of unknown function DUF72; Region: DUF72; pfam01904 397945005073 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945005074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945005075 Integrase core domain; Region: rve; pfam00665 397945005076 Integrase core domain; Region: rve_3; pfam13683 397945005077 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 397945005078 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 397945005079 putative uracil binding site [chemical binding]; other site 397945005080 putative active site [active] 397945005081 recombination factor protein RarA; Reviewed; Region: PRK13342 397945005082 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 397945005083 Walker A motif; other site 397945005084 ATP binding site [chemical binding]; other site 397945005085 Walker B motif; other site 397945005086 arginine finger; other site 397945005087 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 397945005088 Cache domain; Region: Cache_1; pfam02743 397945005089 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 397945005090 dimerization interface [polypeptide binding]; other site 397945005091 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005092 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005093 dimer interface [polypeptide binding]; other site 397945005094 putative CheW interface [polypeptide binding]; other site 397945005095 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945005096 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 397945005097 TM-ABC transporter signature motif; other site 397945005098 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 397945005099 TM-ABC transporter signature motif; other site 397945005100 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945005101 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945005102 Walker A/P-loop; other site 397945005103 ATP binding site [chemical binding]; other site 397945005104 Q-loop/lid; other site 397945005105 ABC transporter signature motif; other site 397945005106 Walker B; other site 397945005107 D-loop; other site 397945005108 H-loop/switch region; other site 397945005109 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945005110 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945005111 Walker A/P-loop; other site 397945005112 ATP binding site [chemical binding]; other site 397945005113 Q-loop/lid; other site 397945005114 ABC transporter signature motif; other site 397945005115 Walker B; other site 397945005116 D-loop; other site 397945005117 H-loop/switch region; other site 397945005118 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 397945005119 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 397945005120 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 397945005121 TM2 domain; Region: TM2; pfam05154 397945005122 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 397945005123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945005124 Coenzyme A binding pocket [chemical binding]; other site 397945005125 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 397945005126 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 397945005127 RimM N-terminal domain; Region: RimM; pfam01782 397945005128 PRC-barrel domain; Region: PRC; pfam05239 397945005129 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 397945005130 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 397945005131 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 397945005132 putative active site [active] 397945005133 putative CoA binding site [chemical binding]; other site 397945005134 nudix motif; other site 397945005135 metal binding site [ion binding]; metal-binding site 397945005136 CobD/Cbib protein; Region: CobD_Cbib; cl00561 397945005137 GTPase RsgA; Reviewed; Region: PRK00098 397945005138 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 397945005139 RNA binding site [nucleotide binding]; other site 397945005140 homodimer interface [polypeptide binding]; other site 397945005141 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 397945005142 GTPase/Zn-binding domain interface [polypeptide binding]; other site 397945005143 GTP/Mg2+ binding site [chemical binding]; other site 397945005144 G4 box; other site 397945005145 G5 box; other site 397945005146 G1 box; other site 397945005147 Switch I region; other site 397945005148 G2 box; other site 397945005149 G3 box; other site 397945005150 Switch II region; other site 397945005151 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_a; cd00913 397945005152 aromatic arch; other site 397945005153 DCoH dimer interaction site [polypeptide binding]; other site 397945005154 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 397945005155 DCoH tetramer interaction site [polypeptide binding]; other site 397945005156 substrate binding site [chemical binding]; other site 397945005157 Peptidase family M48; Region: Peptidase_M48; pfam01435 397945005158 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 397945005159 catalytic site [active] 397945005160 putative active site [active] 397945005161 putative substrate binding site [chemical binding]; other site 397945005162 dimer interface [polypeptide binding]; other site 397945005163 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 397945005164 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 397945005165 ATP binding site [chemical binding]; other site 397945005166 Mg++ binding site [ion binding]; other site 397945005167 motif III; other site 397945005168 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 397945005169 nucleotide binding region [chemical binding]; other site 397945005170 ATP-binding site [chemical binding]; other site 397945005171 PAS domain; Region: PAS_9; pfam13426 397945005172 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 397945005173 PAS domain; Region: PAS_9; pfam13426 397945005174 putative active site [active] 397945005175 heme pocket [chemical binding]; other site 397945005176 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945005177 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945005178 metal binding site [ion binding]; metal-binding site 397945005179 active site 397945005180 I-site; other site 397945005181 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 397945005182 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 397945005183 putative substrate translocation pore; other site 397945005184 Protein of unknown function (DUF461); Region: DUF461; pfam04314 397945005185 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 397945005186 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 397945005187 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 397945005188 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945005189 DNA binding site [nucleotide binding] 397945005190 Ribosomal protein S26e; Region: Ribosomal_S26e; cl01993 397945005191 PAS domain; Region: PAS_9; pfam13426 397945005192 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 397945005193 dimer interface [polypeptide binding]; other site 397945005194 phosphorylation site [posttranslational modification] 397945005195 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 397945005196 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 397945005197 ATP binding site [chemical binding]; other site 397945005198 Mg2+ binding site [ion binding]; other site 397945005199 G-X-G motif; other site 397945005200 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005202 active site 397945005203 phosphorylation site [posttranslational modification] 397945005204 intermolecular recognition site; other site 397945005205 dimerization interface [polypeptide binding]; other site 397945005206 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945005207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005208 active site 397945005209 phosphorylation site [posttranslational modification] 397945005210 intermolecular recognition site; other site 397945005211 dimerization interface [polypeptide binding]; other site 397945005212 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 397945005213 Walker A motif; other site 397945005214 ATP binding site [chemical binding]; other site 397945005215 Walker B motif; other site 397945005216 arginine finger; other site 397945005217 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945005218 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 397945005219 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945005220 Winged helix-turn helix; Region: HTH_29; pfam13551 397945005221 Homeodomain-like domain; Region: HTH_32; pfam13565 397945005222 Integrase core domain; Region: rve; pfam00665 397945005223 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945005224 Integrase core domain; Region: rve_3; pfam13683 397945005225 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945005226 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945005227 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 397945005228 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 397945005229 active site 397945005230 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945005231 glutamate carboxypeptidase; Reviewed; Region: PRK06133 397945005232 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 397945005233 metal binding site [ion binding]; metal-binding site 397945005234 dimer interface [polypeptide binding]; other site 397945005235 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 397945005236 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 397945005237 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 397945005238 putative active site [active] 397945005239 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 397945005240 Part of AAA domain; Region: AAA_19; pfam13245 397945005241 Family description; Region: UvrD_C_2; pfam13538 397945005242 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 397945005243 Phage Tail Collar Domain; Region: Collar; pfam07484 397945005244 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 397945005245 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 397945005246 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 397945005247 Imelysin; Region: Peptidase_M75; cl09159 397945005248 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 397945005249 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 397945005250 Imelysin; Region: Peptidase_M75; cl09159 397945005251 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 397945005252 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 397945005253 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 397945005254 putative active site [active] 397945005255 putative substrate binding site [chemical binding]; other site 397945005256 ATP binding site [chemical binding]; other site 397945005257 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 397945005258 DNA polymerase I; Provisional; Region: PRK05755 397945005259 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 397945005260 active site 397945005261 metal binding site 1 [ion binding]; metal-binding site 397945005262 putative 5' ssDNA interaction site; other site 397945005263 metal binding site 3; metal-binding site 397945005264 metal binding site 2 [ion binding]; metal-binding site 397945005265 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 397945005266 putative DNA binding site [nucleotide binding]; other site 397945005267 putative metal binding site [ion binding]; other site 397945005268 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 397945005269 active site 397945005270 catalytic site [active] 397945005271 substrate binding site [chemical binding]; other site 397945005272 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 397945005273 active site 397945005274 DNA binding site [nucleotide binding] 397945005275 catalytic site [active] 397945005276 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 397945005277 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 397945005278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945005279 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 397945005280 dimerization interface [polypeptide binding]; other site 397945005281 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 397945005282 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945005283 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 397945005284 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945005285 substrate binding pocket [chemical binding]; other site 397945005286 membrane-bound complex binding site; other site 397945005287 hinge residues; other site 397945005288 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 397945005289 DoxX-like family; Region: DoxX_3; pfam13781 397945005290 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 397945005291 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 397945005292 putative NAD(P) binding site [chemical binding]; other site 397945005293 active site 397945005294 Protein of unknown function, DUF393; Region: DUF393; pfam04134 397945005295 Predicted transcriptional regulators [Transcription]; Region: COG1510 397945005296 MarR family; Region: MarR_2; pfam12802 397945005297 Dienelactone hydrolase family; Region: DLH; pfam01738 397945005298 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 397945005299 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 397945005300 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 397945005301 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 397945005302 active sites [active] 397945005303 tetramer interface [polypeptide binding]; other site 397945005304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945005305 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945005306 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945005307 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 397945005308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005309 active site 397945005310 phosphorylation site [posttranslational modification] 397945005311 intermolecular recognition site; other site 397945005312 dimerization interface [polypeptide binding]; other site 397945005313 LytTr DNA-binding domain; Region: LytTR; smart00850 397945005314 Histidine kinase; Region: His_kinase; pfam06580 397945005315 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 397945005316 Mg2+ binding site [ion binding]; other site 397945005317 argininosuccinate lyase; Provisional; Region: PRK00855 397945005318 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 397945005319 active sites [active] 397945005320 tetramer interface [polypeptide binding]; other site 397945005321 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945005322 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 397945005323 active site 397945005324 catalytic triad [active] 397945005325 oxyanion hole [active] 397945005326 OpgC protein; Region: OpgC_C; pfam10129 397945005327 Acyltransferase family; Region: Acyl_transf_3; pfam01757 397945005328 Bacterial Ig-like domain; Region: Big_5; pfam13205 397945005329 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 397945005330 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 397945005331 MG2 domain; Region: A2M_N; pfam01835 397945005332 Alpha-2-macroglobulin family; Region: A2M; pfam00207 397945005333 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 397945005334 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 397945005335 CHASE3 domain; Region: CHASE3; pfam05227 397945005336 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 397945005337 dimerization interface [polypeptide binding]; other site 397945005338 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005339 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005340 dimer interface [polypeptide binding]; other site 397945005341 putative CheW interface [polypeptide binding]; other site 397945005342 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 397945005343 Transglycosylase; Region: Transgly; pfam00912 397945005344 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 397945005345 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 397945005346 EamA-like transporter family; Region: EamA; pfam00892 397945005347 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 397945005348 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 397945005349 phosphate binding site [ion binding]; other site 397945005350 Nitrate and nitrite sensing; Region: NIT; pfam08376 397945005351 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 397945005352 dimerization interface [polypeptide binding]; other site 397945005353 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005354 dimer interface [polypeptide binding]; other site 397945005355 putative CheW interface [polypeptide binding]; other site 397945005356 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 397945005357 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 397945005358 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 397945005359 apolar tunnel; other site 397945005360 heme binding site [chemical binding]; other site 397945005361 dimerization interface [polypeptide binding]; other site 397945005362 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 397945005363 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 397945005364 active site 397945005365 DNA binding site [nucleotide binding] 397945005366 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 397945005367 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 397945005368 conserved cys residue [active] 397945005369 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 397945005370 conserved cys residue [active] 397945005371 Isochorismatase family; Region: Isochorismatase; pfam00857 397945005372 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 397945005373 catalytic triad [active] 397945005374 conserved cis-peptide bond; other site 397945005375 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 397945005376 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 397945005377 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 397945005378 dimerization interface [polypeptide binding]; other site 397945005379 putative ATP binding site [chemical binding]; other site 397945005380 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 397945005381 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 397945005382 Walker A motif; other site 397945005383 ATP binding site [chemical binding]; other site 397945005384 Walker B motif; other site 397945005385 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 397945005386 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 397945005387 poly(A) polymerase; Region: pcnB; TIGR01942 397945005388 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 397945005389 active site 397945005390 NTP binding site [chemical binding]; other site 397945005391 metal binding triad [ion binding]; metal-binding site 397945005392 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 397945005393 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 397945005394 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 397945005395 catalytic center binding site [active] 397945005396 ATP binding site [chemical binding]; other site 397945005397 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945005398 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 397945005399 dimerization interface [polypeptide binding]; other site 397945005400 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 397945005401 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 397945005402 catalytic loop [active] 397945005403 iron binding site [ion binding]; other site 397945005404 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 397945005405 FAD binding pocket [chemical binding]; other site 397945005406 FAD binding motif [chemical binding]; other site 397945005407 phosphate binding motif [ion binding]; other site 397945005408 beta-alpha-beta structure motif; other site 397945005409 NAD binding pocket [chemical binding]; other site 397945005410 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 397945005411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945005412 NAD(P) binding site [chemical binding]; other site 397945005413 active site 397945005414 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945005415 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945005416 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 397945005417 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945005418 FAD binding site [chemical binding]; other site 397945005419 substrate binding pocket [chemical binding]; other site 397945005420 catalytic base [active] 397945005421 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945005422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945005423 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 397945005424 dimerization interface [polypeptide binding]; other site 397945005425 DNA topoisomerase; Region: Topoisom_bac; pfam01131 397945005426 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 397945005427 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 397945005428 cysteine synthase B; Region: cysM; TIGR01138 397945005429 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 397945005430 dimer interface [polypeptide binding]; other site 397945005431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945005432 catalytic residue [active] 397945005433 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 397945005434 nudix motif; other site 397945005435 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 397945005436 CPxP motif; other site 397945005437 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945005438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945005439 Integrase core domain; Region: rve; pfam00665 397945005440 Integrase core domain; Region: rve_3; pfam13683 397945005441 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 397945005442 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 397945005443 active site 397945005444 tetramer interface; other site 397945005445 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 397945005446 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 397945005447 HIGH motif; other site 397945005448 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 397945005449 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 397945005450 active site 397945005451 KMSKS motif; other site 397945005452 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 397945005453 tRNA binding surface [nucleotide binding]; other site 397945005454 anticodon binding site; other site 397945005455 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 397945005456 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 397945005457 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 397945005458 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945005459 Zn binding site [ion binding]; other site 397945005460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945005461 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 397945005462 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945005463 Walker A/P-loop; other site 397945005464 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945005465 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 397945005466 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 397945005467 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 397945005468 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 397945005469 active site 397945005470 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 397945005471 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 397945005472 domain interfaces; other site 397945005473 active site 397945005474 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 397945005475 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 397945005476 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 397945005477 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 397945005478 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 397945005479 Domain of unknown function DUF20; Region: UPF0118; pfam01594 397945005480 transcriptional activator FlhC; Provisional; Region: PRK12722 397945005481 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 397945005482 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 397945005483 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 397945005484 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945005485 active site 397945005486 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 397945005487 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945005488 active site 397945005489 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 397945005490 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 397945005491 active site residue [active] 397945005492 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 397945005493 active site residue [active] 397945005494 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 397945005495 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 397945005496 [2Fe-2S] cluster binding site [ion binding]; other site 397945005497 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 397945005498 alpha subunit interface [polypeptide binding]; other site 397945005499 active site 397945005500 substrate binding site [chemical binding]; other site 397945005501 Fe binding site [ion binding]; other site 397945005502 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 397945005503 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 397945005504 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 397945005505 substrate binding pocket [chemical binding]; other site 397945005506 substrate-Mg2+ binding site; other site 397945005507 aspartate-rich region 1; other site 397945005508 aspartate-rich region 2; other site 397945005509 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 397945005510 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 397945005511 TPP-binding site; other site 397945005512 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 397945005513 PYR/PP interface [polypeptide binding]; other site 397945005514 dimer interface [polypeptide binding]; other site 397945005515 TPP binding site [chemical binding]; other site 397945005516 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 397945005517 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 397945005518 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945005519 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 397945005520 DctM-like transporters; Region: DctM; pfam06808 397945005521 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 397945005522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945005523 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945005524 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945005525 Conserved TM helix; Region: TM_helix; pfam05552 397945005526 trehalose synthase; Region: treS_nterm; TIGR02456 397945005527 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 397945005528 active site 397945005529 catalytic site [active] 397945005530 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 397945005531 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 397945005532 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 397945005533 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 397945005534 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 397945005535 active site 397945005536 homodimer interface [polypeptide binding]; other site 397945005537 catalytic site [active] 397945005538 acceptor binding site [chemical binding]; other site 397945005539 glycogen branching enzyme; Provisional; Region: PRK12313 397945005540 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 397945005541 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 397945005542 active site 397945005543 catalytic site [active] 397945005544 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 397945005545 BCCT family transporter; Region: BCCT; pfam02028 397945005546 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 397945005547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945005548 Walker A/P-loop; other site 397945005549 ATP binding site [chemical binding]; other site 397945005550 Q-loop/lid; other site 397945005551 ABC transporter signature motif; other site 397945005552 Walker B; other site 397945005553 D-loop; other site 397945005554 H-loop/switch region; other site 397945005555 TOBE domain; Region: TOBE; cl01440 397945005556 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 397945005557 dimer interface [polypeptide binding]; other site 397945005558 ABC-ATPase subunit interface; other site 397945005559 putative PBP binding loops; other site 397945005560 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945005561 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 397945005562 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 397945005563 TOBE domain; Region: TOBE; cl01440 397945005564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945005565 ABC transporter signature motif; other site 397945005566 Walker B; other site 397945005567 D-loop; other site 397945005568 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005570 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005571 active site 397945005572 phosphorylation site [posttranslational modification] 397945005573 intermolecular recognition site; other site 397945005574 dimerization interface [polypeptide binding]; other site 397945005575 LytTr DNA-binding domain; Region: LytTR; smart00850 397945005576 Histidine kinase; Region: His_kinase; pfam06580 397945005577 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 397945005578 ATP binding site [chemical binding]; other site 397945005579 Mg2+ binding site [ion binding]; other site 397945005580 G-X-G motif; other site 397945005581 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945005582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945005583 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945005584 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 397945005585 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 397945005586 Protein export membrane protein; Region: SecD_SecF; cl14618 397945005587 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945005588 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 397945005589 PAS fold; Region: PAS_4; pfam08448 397945005590 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 397945005591 putative active site [active] 397945005592 heme pocket [chemical binding]; other site 397945005593 PAS domain; Region: PAS_9; pfam13426 397945005594 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 397945005595 putative active site [active] 397945005596 heme pocket [chemical binding]; other site 397945005597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945005598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945005599 metal binding site [ion binding]; metal-binding site 397945005600 active site 397945005601 I-site; other site 397945005602 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945005603 FAD binding domain; Region: FAD_binding_4; pfam01565 397945005604 Berberine and berberine like; Region: BBE; pfam08031 397945005605 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945005606 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 397945005607 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 397945005608 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 397945005609 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945005610 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945005611 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945005612 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945005613 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945005614 RHS Repeat; Region: RHS_repeat; cl11982 397945005615 RHS Repeat; Region: RHS_repeat; pfam05593 397945005616 RHS Repeat; Region: RHS_repeat; pfam05593 397945005617 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945005618 RHS protein; Region: RHS; pfam03527 397945005619 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945005620 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 397945005621 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 397945005622 NAD binding site [chemical binding]; other site 397945005623 homotetramer interface [polypeptide binding]; other site 397945005624 homodimer interface [polypeptide binding]; other site 397945005625 substrate binding site [chemical binding]; other site 397945005626 active site 397945005627 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 397945005628 MutS domain I; Region: MutS_I; pfam01624 397945005629 MutS domain II; Region: MutS_II; pfam05188 397945005630 MutS domain III; Region: MutS_III; pfam05192 397945005631 MutS domain V; Region: MutS_V; pfam00488 397945005632 Walker A/P-loop; other site 397945005633 ATP binding site [chemical binding]; other site 397945005634 Q-loop/lid; other site 397945005635 ABC transporter signature motif; other site 397945005636 Walker B; other site 397945005637 D-loop; other site 397945005638 H-loop/switch region; other site 397945005639 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945005640 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 397945005641 N-terminal plug; other site 397945005642 ligand-binding site [chemical binding]; other site 397945005643 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 397945005644 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 397945005645 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 397945005646 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945005647 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 397945005648 PAS domain; Region: PAS_9; pfam13426 397945005649 putative active site [active] 397945005650 heme pocket [chemical binding]; other site 397945005651 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 397945005652 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945005653 putative active site [active] 397945005654 heme pocket [chemical binding]; other site 397945005655 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945005656 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945005657 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 397945005658 putative active site [active] 397945005659 heme pocket [chemical binding]; other site 397945005660 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 397945005661 dimer interface [polypeptide binding]; other site 397945005662 phosphorylation site [posttranslational modification] 397945005663 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 397945005664 ATP binding site [chemical binding]; other site 397945005665 Mg2+ binding site [ion binding]; other site 397945005666 G-X-G motif; other site 397945005667 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005669 active site 397945005670 phosphorylation site [posttranslational modification] 397945005671 intermolecular recognition site; other site 397945005672 dimerization interface [polypeptide binding]; other site 397945005673 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005675 active site 397945005676 phosphorylation site [posttranslational modification] 397945005677 intermolecular recognition site; other site 397945005678 dimerization interface [polypeptide binding]; other site 397945005679 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 397945005680 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 397945005681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005682 active site 397945005683 phosphorylation site [posttranslational modification] 397945005684 intermolecular recognition site; other site 397945005685 dimerization interface [polypeptide binding]; other site 397945005686 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945005687 Zn2+ binding site [ion binding]; other site 397945005688 Mg2+ binding site [ion binding]; other site 397945005689 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 397945005690 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945005691 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 397945005692 Walker A/P-loop; other site 397945005693 ATP binding site [chemical binding]; other site 397945005694 Q-loop/lid; other site 397945005695 ABC transporter signature motif; other site 397945005696 Walker B; other site 397945005697 D-loop; other site 397945005698 H-loop/switch region; other site 397945005699 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 397945005700 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 397945005701 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 397945005702 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 397945005703 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 397945005704 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 397945005705 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 397945005706 active site 397945005707 dimerization interface [polypeptide binding]; other site 397945005708 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 397945005709 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 397945005710 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 397945005711 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 397945005712 Walker A/P-loop; other site 397945005713 ATP binding site [chemical binding]; other site 397945005714 Q-loop/lid; other site 397945005715 ABC transporter signature motif; other site 397945005716 Walker B; other site 397945005717 D-loop; other site 397945005718 H-loop/switch region; other site 397945005719 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 397945005720 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 397945005721 active site 397945005722 homotetramer interface [polypeptide binding]; other site 397945005723 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 397945005724 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 397945005725 serine O-acetyltransferase; Region: cysE; TIGR01172 397945005726 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 397945005727 trimer interface [polypeptide binding]; other site 397945005728 active site 397945005729 substrate binding site [chemical binding]; other site 397945005730 CoA binding site [chemical binding]; other site 397945005731 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 397945005732 MPT binding site; other site 397945005733 trimer interface [polypeptide binding]; other site 397945005734 Protein of unknown function (DUF615); Region: DUF615; pfam04751 397945005735 peptidase PmbA; Provisional; Region: PRK11040 397945005736 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 397945005737 succinic semialdehyde dehydrogenase; Region: PLN02278 397945005738 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 397945005739 tetramerization interface [polypeptide binding]; other site 397945005740 NAD(P) binding site [chemical binding]; other site 397945005741 catalytic residues [active] 397945005742 galactarate dehydratase; Region: galactar-dH20; TIGR03248 397945005743 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 397945005744 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 397945005745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945005746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945005747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945005748 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 397945005749 dimerization interface [polypeptide binding]; other site 397945005750 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 397945005751 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 397945005752 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 397945005753 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945005754 active site 397945005755 nucleophile elbow; other site 397945005756 tartrate dehydrogenase; Region: TTC; TIGR02089 397945005757 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 397945005758 transcriptional activator TtdR; Provisional; Region: PRK09801 397945005759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945005760 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 397945005761 putative effector binding pocket; other site 397945005762 putative dimerization interface [polypeptide binding]; other site 397945005763 Predicted transcriptional regulator [Transcription]; Region: COG2378 397945005764 HTH domain; Region: HTH_11; pfam08279 397945005765 WYL domain; Region: WYL; pfam13280 397945005766 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945005767 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 397945005768 putative C-terminal domain interface [polypeptide binding]; other site 397945005769 putative GSH binding site (G-site) [chemical binding]; other site 397945005770 putative dimer interface [polypeptide binding]; other site 397945005771 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 397945005772 dimer interface [polypeptide binding]; other site 397945005773 N-terminal domain interface [polypeptide binding]; other site 397945005774 putative substrate binding pocket (H-site) [chemical binding]; other site 397945005775 Yqey-like protein; Region: YqeY; pfam09424 397945005776 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 397945005777 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 397945005778 NIPSNAP; Region: NIPSNAP; pfam07978 397945005779 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 397945005780 HI0933-like protein; Region: HI0933_like; pfam03486 397945005781 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 397945005782 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 397945005783 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 397945005784 Sulfate transporter family; Region: Sulfate_transp; pfam00916 397945005785 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 397945005786 active site clefts [active] 397945005787 zinc binding site [ion binding]; other site 397945005788 dimer interface [polypeptide binding]; other site 397945005789 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 397945005790 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 397945005791 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 397945005792 CBD_II domain; Region: CBD_II; smart00637 397945005793 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 397945005794 active site 397945005795 SAM binding site [chemical binding]; other site 397945005796 homodimer interface [polypeptide binding]; other site 397945005797 glycosyl transferase family protein; Provisional; Region: PRK08136 397945005798 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 397945005799 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 397945005800 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 397945005801 [4Fe-4S] binding site [ion binding]; other site 397945005802 molybdopterin cofactor binding site; other site 397945005803 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 397945005804 molybdopterin cofactor binding site; other site 397945005805 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 397945005806 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 397945005807 [2Fe-2S] cluster binding site [ion binding]; other site 397945005808 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 397945005809 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945005810 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945005811 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 397945005812 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 397945005813 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 397945005814 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005815 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005816 dimer interface [polypeptide binding]; other site 397945005817 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 397945005818 putative CheW interface [polypeptide binding]; other site 397945005819 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 397945005820 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 397945005821 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 397945005822 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945005823 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945005824 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 397945005825 PAS domain; Region: PAS_9; pfam13426 397945005826 putative active site [active] 397945005827 heme pocket [chemical binding]; other site 397945005828 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005829 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005830 dimer interface [polypeptide binding]; other site 397945005831 putative CheW interface [polypeptide binding]; other site 397945005832 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 397945005833 FOG: CBS domain [General function prediction only]; Region: COG0517 397945005834 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 397945005835 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 397945005836 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 397945005837 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 397945005838 Trehalase; Region: Trehalase; cl17346 397945005839 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 397945005840 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005841 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 397945005842 dimerization interface [polypeptide binding]; other site 397945005843 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 397945005844 putative binding surface; other site 397945005845 active site 397945005846 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 397945005847 G-X-G motif; other site 397945005848 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005849 putative CheW interface [polypeptide binding]; other site 397945005850 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945005852 active site 397945005853 phosphorylation site [posttranslational modification] 397945005854 intermolecular recognition site; other site 397945005855 dimerization interface [polypeptide binding]; other site 397945005856 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 397945005857 putative catalytic site [active] 397945005858 putative phosphate binding site [ion binding]; other site 397945005859 active site 397945005860 metal binding site A [ion binding]; metal-binding site 397945005861 DNA binding site [nucleotide binding] 397945005862 putative AP binding site [nucleotide binding]; other site 397945005863 putative metal binding site B [ion binding]; other site 397945005864 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 397945005865 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945005866 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945005867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945005868 Walker A/P-loop; other site 397945005869 ATP binding site [chemical binding]; other site 397945005870 Q-loop/lid; other site 397945005871 ABC transporter signature motif; other site 397945005872 Walker B; other site 397945005873 D-loop; other site 397945005874 H-loop/switch region; other site 397945005875 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 397945005876 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945005877 putative substrate translocation pore; other site 397945005878 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945005879 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945005880 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945005881 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 397945005882 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 397945005883 Winged helix-turn helix; Region: HTH_29; pfam13551 397945005884 Homeodomain-like domain; Region: HTH_32; pfam13565 397945005885 Integrase core domain; Region: rve; pfam00665 397945005886 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945005887 Integrase core domain; Region: rve_3; pfam13683 397945005888 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945005889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945005890 Integrase core domain; Region: rve; pfam00665 397945005891 Integrase core domain; Region: rve_3; pfam13683 397945005892 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 397945005893 cystathionine beta-lyase; Provisional; Region: PRK07050 397945005894 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 397945005895 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945005896 catalytic residue [active] 397945005897 Methyltransferase domain; Region: Methyltransf_23; pfam13489 397945005898 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 397945005899 S-adenosylmethionine binding site [chemical binding]; other site 397945005900 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 397945005901 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 397945005902 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945005903 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945005904 RibD C-terminal domain; Region: RibD_C; cl17279 397945005905 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 397945005906 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945005907 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 397945005908 Walker A/P-loop; other site 397945005909 ATP binding site [chemical binding]; other site 397945005910 Q-loop/lid; other site 397945005911 ABC transporter signature motif; other site 397945005912 Walker B; other site 397945005913 D-loop; other site 397945005914 H-loop/switch region; other site 397945005915 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945005916 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 397945005917 dimer interface [polypeptide binding]; other site 397945005918 conserved gate region; other site 397945005919 putative PBP binding loops; other site 397945005920 ABC-ATPase subunit interface; other site 397945005921 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 397945005922 NMT1-like family; Region: NMT1_2; pfam13379 397945005923 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 397945005924 ANTAR domain; Region: ANTAR; pfam03861 397945005925 UGMP family protein; Validated; Region: PRK09604 397945005926 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 397945005927 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 397945005928 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 397945005929 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945005930 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 397945005931 putative ligand binding site [chemical binding]; other site 397945005932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945005933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945005934 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 397945005935 NnrS protein; Region: NnrS; pfam05940 397945005936 NnrS protein; Region: NnrS; pfam05940 397945005937 Transglycosylase SLT domain; Region: SLT_2; pfam13406 397945005938 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 397945005939 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945005940 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 397945005941 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 397945005942 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 397945005943 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 397945005944 Protein of unknown function DUF58; Region: DUF58; pfam01882 397945005945 MoxR-like ATPases [General function prediction only]; Region: COG0714 397945005946 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 397945005947 Walker A motif; other site 397945005948 ATP binding site [chemical binding]; other site 397945005949 Walker B motif; other site 397945005950 arginine finger; other site 397945005951 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 397945005952 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 397945005953 putative active site [active] 397945005954 Zn binding site [ion binding]; other site 397945005955 enoyl-CoA hydratase; Validated; Region: PRK08139 397945005956 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 397945005957 substrate binding site [chemical binding]; other site 397945005958 oxyanion hole (OAH) forming residues; other site 397945005959 trimer interface [polypeptide binding]; other site 397945005960 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945005961 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 397945005962 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945005963 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 397945005964 Ligand binding site [chemical binding]; other site 397945005965 Electron transfer flavoprotein domain; Region: ETF; pfam01012 397945005966 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 397945005967 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 397945005968 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 397945005969 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 397945005970 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 397945005971 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945005972 active site 397945005973 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 397945005974 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 397945005975 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 397945005976 FMN binding site [chemical binding]; other site 397945005977 substrate binding site [chemical binding]; other site 397945005978 putative catalytic residue [active] 397945005979 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 397945005980 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 397945005981 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 397945005982 motif II; other site 397945005983 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945005984 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945005985 metal binding site [ion binding]; metal-binding site 397945005986 putative dimer interface [polypeptide binding]; other site 397945005987 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945005988 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 397945005989 putative DNA binding site [nucleotide binding]; other site 397945005990 putative Zn2+ binding site [ion binding]; other site 397945005991 AsnC family; Region: AsnC_trans_reg; pfam01037 397945005992 hypothetical protein; Provisional; Region: PRK05965 397945005993 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 397945005994 inhibitor-cofactor binding pocket; inhibition site 397945005995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945005996 catalytic residue [active] 397945005997 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 397945005998 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 397945005999 putative ligand binding site [chemical binding]; other site 397945006000 NAD binding site [chemical binding]; other site 397945006001 dimerization interface [polypeptide binding]; other site 397945006002 catalytic site [active] 397945006003 Cupin; Region: Cupin_6; pfam12852 397945006004 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 397945006005 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 397945006006 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945006007 Coenzyme A binding pocket [chemical binding]; other site 397945006008 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945006009 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 397945006010 active site 397945006011 motif II; other site 397945006012 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 397945006013 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945006014 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 397945006015 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_17; cd08503 397945006016 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945006017 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 397945006018 dimer interface [polypeptide binding]; other site 397945006019 conserved gate region; other site 397945006020 putative PBP binding loops; other site 397945006021 ABC-ATPase subunit interface; other site 397945006022 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 397945006023 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 397945006024 dimer interface [polypeptide binding]; other site 397945006025 conserved gate region; other site 397945006026 ABC-ATPase subunit interface; other site 397945006027 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945006028 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 397945006029 Walker A/P-loop; other site 397945006030 ATP binding site [chemical binding]; other site 397945006031 Q-loop/lid; other site 397945006032 ABC transporter signature motif; other site 397945006033 Walker B; other site 397945006034 D-loop; other site 397945006035 H-loop/switch region; other site 397945006036 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945006037 Walker A/P-loop; other site 397945006038 ATP binding site [chemical binding]; other site 397945006039 Q-loop/lid; other site 397945006040 ABC transporter signature motif; other site 397945006041 Walker B; other site 397945006042 D-loop; other site 397945006043 H-loop/switch region; other site 397945006044 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945006045 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 397945006046 tartrate dehydrogenase; Region: TTC; TIGR02089 397945006047 succinic semialdehyde dehydrogenase; Region: PLN02278 397945006048 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 397945006049 tetramerization interface [polypeptide binding]; other site 397945006050 NAD(P) binding site [chemical binding]; other site 397945006051 catalytic residues [active] 397945006052 putative metal dependent hydrolase; Provisional; Region: PRK11598 397945006053 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 397945006054 Sulfatase; Region: Sulfatase; pfam00884 397945006055 S-formylglutathione hydrolase; Region: PLN02442 397945006056 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 397945006057 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 397945006058 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 397945006059 substrate binding site [chemical binding]; other site 397945006060 catalytic Zn binding site [ion binding]; other site 397945006061 NAD binding site [chemical binding]; other site 397945006062 structural Zn binding site [ion binding]; other site 397945006063 dimer interface [polypeptide binding]; other site 397945006064 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 397945006065 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 397945006066 conserved cys residue [active] 397945006067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945006068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945006069 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 397945006070 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 397945006071 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 397945006072 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 397945006073 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 397945006074 dimer interface [polypeptide binding]; other site 397945006075 active site 397945006076 citrylCoA binding site [chemical binding]; other site 397945006077 NADH binding [chemical binding]; other site 397945006078 cationic pore residues; other site 397945006079 oxalacetate/citrate binding site [chemical binding]; other site 397945006080 coenzyme A binding site [chemical binding]; other site 397945006081 catalytic triad [active] 397945006082 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 397945006083 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 397945006084 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 397945006085 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 397945006086 L-aspartate oxidase; Provisional; Region: PRK06175 397945006087 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 397945006088 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 397945006089 SdhC subunit interface [polypeptide binding]; other site 397945006090 proximal heme binding site [chemical binding]; other site 397945006091 cardiolipin binding site; other site 397945006092 Iron-sulfur protein interface; other site 397945006093 proximal quinone binding site [chemical binding]; other site 397945006094 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 397945006095 Iron-sulfur protein interface; other site 397945006096 proximal quinone binding site [chemical binding]; other site 397945006097 SdhD (CybS) interface [polypeptide binding]; other site 397945006098 proximal heme binding site [chemical binding]; other site 397945006099 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 397945006100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945006101 DNA-binding site [nucleotide binding]; DNA binding site 397945006102 UTRA domain; Region: UTRA; pfam07702 397945006103 malate dehydrogenase; Provisional; Region: PRK05442 397945006104 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 397945006105 NAD(P) binding site [chemical binding]; other site 397945006106 dimer interface [polypeptide binding]; other site 397945006107 malate binding site [chemical binding]; other site 397945006108 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 397945006109 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 397945006110 S-adenosylmethionine binding site [chemical binding]; other site 397945006111 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 397945006112 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 397945006113 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 397945006114 substrate binding site [chemical binding]; other site 397945006115 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 397945006116 substrate binding site [chemical binding]; other site 397945006117 ligand binding site [chemical binding]; other site 397945006118 putative transporter; Reviewed; Region: PRK12369 397945006119 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 397945006120 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 397945006121 non-specific DNA binding site [nucleotide binding]; other site 397945006122 salt bridge; other site 397945006123 sequence-specific DNA binding site [nucleotide binding]; other site 397945006124 putative protease; Provisional; Region: PRK15452 397945006125 Peptidase family U32; Region: Peptidase_U32; pfam01136 397945006126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945006127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945006128 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 397945006129 dimerization interface [polypeptide binding]; other site 397945006130 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 397945006131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006132 active site 397945006133 phosphorylation site [posttranslational modification] 397945006134 intermolecular recognition site; other site 397945006135 dimerization interface [polypeptide binding]; other site 397945006136 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945006137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945006138 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 397945006139 dimer interface [polypeptide binding]; other site 397945006140 phosphorylation site [posttranslational modification] 397945006141 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 397945006142 ATP binding site [chemical binding]; other site 397945006143 Mg2+ binding site [ion binding]; other site 397945006144 G-X-G motif; other site 397945006145 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 397945006146 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 397945006147 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 397945006148 Subunit I/III interface [polypeptide binding]; other site 397945006149 Subunit III/IV interface [polypeptide binding]; other site 397945006150 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 397945006151 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 397945006152 D-pathway; other site 397945006153 Putative ubiquinol binding site [chemical binding]; other site 397945006154 Low-spin heme (heme b) binding site [chemical binding]; other site 397945006155 Putative water exit pathway; other site 397945006156 Binuclear center (heme o3/CuB) [ion binding]; other site 397945006157 K-pathway; other site 397945006158 Putative proton exit pathway; other site 397945006159 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 397945006160 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 397945006161 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 397945006162 metabolite-proton symporter; Region: 2A0106; TIGR00883 397945006163 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 397945006164 putative substrate translocation pore; other site 397945006165 TolA protein; Region: tolA_full; TIGR02794 397945006166 TonB C terminal; Region: TonB_2; pfam13103 397945006167 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 397945006168 TolR protein; Region: tolR; TIGR02801 397945006169 TolQ protein; Region: tolQ; TIGR02796 397945006170 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 397945006171 active site 397945006172 aminotransferase; Validated; Region: PRK07337 397945006173 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 397945006174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945006175 homodimer interface [polypeptide binding]; other site 397945006176 catalytic residue [active] 397945006177 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 397945006178 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 397945006179 homopentamer interface [polypeptide binding]; other site 397945006180 active site 397945006181 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 397945006182 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 397945006183 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 397945006184 dimerization interface [polypeptide binding]; other site 397945006185 active site 397945006186 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 397945006187 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 397945006188 catalytic loop [active] 397945006189 iron binding site [ion binding]; other site 397945006190 Domain of unknown function (DUF427); Region: DUF427; pfam04248 397945006191 PAS fold; Region: PAS_4; pfam08448 397945006192 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 397945006193 putative active site [active] 397945006194 heme pocket [chemical binding]; other site 397945006195 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 397945006196 PAS domain; Region: PAS_9; pfam13426 397945006197 putative active site [active] 397945006198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945006199 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 397945006200 dimer interface [polypeptide binding]; other site 397945006201 phosphorylation site [posttranslational modification] 397945006202 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 397945006203 ATP binding site [chemical binding]; other site 397945006204 Mg2+ binding site [ion binding]; other site 397945006205 G-X-G motif; other site 397945006206 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945006207 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 397945006208 substrate binding pocket [chemical binding]; other site 397945006209 membrane-bound complex binding site; other site 397945006210 hinge residues; other site 397945006211 Response regulator receiver domain; Region: Response_reg; pfam00072 397945006212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006213 active site 397945006214 phosphorylation site [posttranslational modification] 397945006215 intermolecular recognition site; other site 397945006216 dimerization interface [polypeptide binding]; other site 397945006217 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 397945006218 DNA binding residues [nucleotide binding] 397945006219 Response regulator receiver domain; Region: Response_reg; pfam00072 397945006220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006221 active site 397945006222 phosphorylation site [posttranslational modification] 397945006223 intermolecular recognition site; other site 397945006224 dimerization interface [polypeptide binding]; other site 397945006225 Response regulator receiver domain; Region: Response_reg; pfam00072 397945006226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006227 active site 397945006228 phosphorylation site [posttranslational modification] 397945006229 intermolecular recognition site; other site 397945006230 dimerization interface [polypeptide binding]; other site 397945006231 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945006232 HAMP domain; Region: HAMP; pfam00672 397945006233 dimerization interface [polypeptide binding]; other site 397945006234 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006235 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006236 dimer interface [polypeptide binding]; other site 397945006237 putative CheW interface [polypeptide binding]; other site 397945006238 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 397945006239 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 397945006240 galactonate dehydratase; Provisional; Region: PRK14017 397945006241 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 397945006242 putative active site pocket [active] 397945006243 putative metal binding site [ion binding]; other site 397945006244 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 397945006245 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 397945006246 active site 397945006247 intersubunit interface [polypeptide binding]; other site 397945006248 catalytic residue [active] 397945006249 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 397945006250 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 397945006251 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945006252 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 397945006253 inhibitor site; inhibition site 397945006254 active site 397945006255 dimer interface [polypeptide binding]; other site 397945006256 catalytic residue [active] 397945006257 dihydroxy-acid dehydratase; Validated; Region: PRK06131 397945006258 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945006259 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 397945006260 TM-ABC transporter signature motif; other site 397945006261 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945006262 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 397945006263 TM-ABC transporter signature motif; other site 397945006264 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 397945006265 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 397945006266 Walker A/P-loop; other site 397945006267 ATP binding site [chemical binding]; other site 397945006268 Q-loop/lid; other site 397945006269 ABC transporter signature motif; other site 397945006270 Walker B; other site 397945006271 D-loop; other site 397945006272 H-loop/switch region; other site 397945006273 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 397945006274 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945006275 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 397945006276 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 397945006277 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945006278 TM-ABC transporter signature motif; other site 397945006279 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 397945006280 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 397945006281 Walker A/P-loop; other site 397945006282 ATP binding site [chemical binding]; other site 397945006283 Q-loop/lid; other site 397945006284 ABC transporter signature motif; other site 397945006285 Walker B; other site 397945006286 D-loop; other site 397945006287 H-loop/switch region; other site 397945006288 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 397945006289 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 397945006290 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 397945006291 putative ligand binding site [chemical binding]; other site 397945006292 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 397945006293 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 397945006294 putative ligand binding site [chemical binding]; other site 397945006295 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 397945006296 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945006297 NAD(P) binding site [chemical binding]; other site 397945006298 catalytic residues [active] 397945006299 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945006300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945006301 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 397945006302 putative dimerization interface [polypeptide binding]; other site 397945006303 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 397945006304 classical (c) SDRs; Region: SDR_c; cd05233 397945006305 NAD(P) binding site [chemical binding]; other site 397945006306 active site 397945006307 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945006308 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 397945006309 active site 397945006310 catalytic residues [active] 397945006311 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 397945006312 thiamine pyrophosphate protein; Validated; Region: PRK08199 397945006313 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 397945006314 PYR/PP interface [polypeptide binding]; other site 397945006315 dimer interface [polypeptide binding]; other site 397945006316 TPP binding site [chemical binding]; other site 397945006317 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 397945006318 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 397945006319 TPP-binding site [chemical binding]; other site 397945006320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945006321 AAA domain; Region: AAA_21; pfam13304 397945006322 Walker A/P-loop; other site 397945006323 ATP binding site [chemical binding]; other site 397945006324 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 397945006325 GAF domain; Region: GAF; pfam01590 397945006326 GAF domain; Region: GAF_2; pfam13185 397945006327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945006328 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 397945006329 phosphorylation site [posttranslational modification] 397945006330 dimer interface [polypeptide binding]; other site 397945006331 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 397945006332 ATP binding site [chemical binding]; other site 397945006333 Mg2+ binding site [ion binding]; other site 397945006334 G-X-G motif; other site 397945006335 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 397945006336 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 397945006337 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 397945006338 GTP/Mg2+ binding site [chemical binding]; other site 397945006339 G4 box; other site 397945006340 G5 box; other site 397945006341 G1 box; other site 397945006342 Switch I region; other site 397945006343 G2 box; other site 397945006344 G3 box; other site 397945006345 Switch II region; other site 397945006346 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 397945006347 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945006348 trimer interface [polypeptide binding]; other site 397945006349 eyelet of channel; other site 397945006350 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945006351 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 397945006352 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945006353 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 397945006354 homotrimer interaction site [polypeptide binding]; other site 397945006355 putative active site [active] 397945006356 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 397945006357 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 397945006358 DNA binding residues [nucleotide binding] 397945006359 dimer interface [polypeptide binding]; other site 397945006360 [2Fe-2S] cluster binding site [ion binding]; other site 397945006361 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 397945006362 MgtC family; Region: MgtC; pfam02308 397945006363 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945006364 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 397945006365 active site 397945006366 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 397945006367 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 397945006368 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 397945006369 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945006370 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 397945006371 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945006372 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006374 dimer interface [polypeptide binding]; other site 397945006375 putative CheW interface [polypeptide binding]; other site 397945006376 enterobactin exporter EntS; Provisional; Region: PRK10489 397945006377 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 397945006378 putative substrate translocation pore; other site 397945006379 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 397945006380 pseudouridine synthase; Region: TIGR00093 397945006381 active site 397945006382 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 397945006383 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945006384 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 397945006385 PLD-like domain; Region: PLDc_2; pfam13091 397945006386 putative active site [active] 397945006387 catalytic site [active] 397945006388 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 397945006389 PLD-like domain; Region: PLDc_2; pfam13091 397945006390 putative active site [active] 397945006391 catalytic site [active] 397945006392 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 397945006393 putative hydrophobic ligand binding site [chemical binding]; other site 397945006394 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 397945006395 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 397945006396 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 397945006397 META domain; Region: META; cl01245 397945006398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945006399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945006400 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 397945006401 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945006402 active site 397945006403 HIGH motif; other site 397945006404 nucleotide binding site [chemical binding]; other site 397945006405 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 397945006406 KMSKS motif; other site 397945006407 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 397945006408 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 397945006409 Dehydroquinase class II; Region: DHquinase_II; pfam01220 397945006410 trimer interface [polypeptide binding]; other site 397945006411 active site 397945006412 dimer interface [polypeptide binding]; other site 397945006413 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945006414 hypothetical protein; Provisional; Region: PRK09256 397945006415 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 397945006416 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 397945006417 putative active site [active] 397945006418 metal binding site [ion binding]; metal-binding site 397945006419 Predicted esterase [General function prediction only]; Region: COG0400 397945006420 putative hydrolase; Provisional; Region: PRK11460 397945006421 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 397945006422 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 397945006423 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945006424 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 397945006425 putative DNA binding site [nucleotide binding]; other site 397945006426 putative Zn2+ binding site [ion binding]; other site 397945006427 AsnC family; Region: AsnC_trans_reg; pfam01037 397945006428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945006429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945006430 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 397945006431 dimerization interface [polypeptide binding]; other site 397945006432 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945006433 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945006434 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945006435 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 397945006436 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 397945006437 putative active site [active] 397945006438 putative metal binding site [ion binding]; other site 397945006439 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 397945006440 substrate binding site [chemical binding]; other site 397945006441 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 397945006442 substrate binding site [chemical binding]; other site 397945006443 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 397945006444 SnoaL-like domain; Region: SnoaL_3; pfam13474 397945006445 TPR repeat; Region: TPR_11; pfam13414 397945006446 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 397945006447 binding surface 397945006448 TPR motif; other site 397945006449 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 397945006450 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 397945006451 active site 397945006452 HIGH motif; other site 397945006453 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 397945006454 KMSKS motif; other site 397945006455 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 397945006456 tRNA binding surface [nucleotide binding]; other site 397945006457 anticodon binding site; other site 397945006458 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945006459 endonuclease III; Region: ENDO3c; smart00478 397945006460 minor groove reading motif; other site 397945006461 helix-hairpin-helix signature motif; other site 397945006462 substrate binding pocket [chemical binding]; other site 397945006463 active site 397945006464 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 397945006465 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 397945006466 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 397945006467 Ligand Binding Site [chemical binding]; other site 397945006468 TilS substrate binding domain; Region: TilS; pfam09179 397945006469 aspartate kinase; Reviewed; Region: PRK06635 397945006470 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 397945006471 putative nucleotide binding site [chemical binding]; other site 397945006472 putative catalytic residues [active] 397945006473 putative Mg ion binding site [ion binding]; other site 397945006474 putative aspartate binding site [chemical binding]; other site 397945006475 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 397945006476 putative allosteric regulatory site; other site 397945006477 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 397945006478 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 397945006479 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 397945006480 active site 397945006481 DNA binding site [nucleotide binding] 397945006482 Int/Topo IB signature motif; other site 397945006483 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 397945006484 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 397945006485 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 397945006486 non-specific DNA binding site [nucleotide binding]; other site 397945006487 salt bridge; other site 397945006488 sequence-specific DNA binding site [nucleotide binding]; other site 397945006489 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945006490 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 397945006491 Catalytic site [active] 397945006492 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 397945006493 Helix-turn-helix domain; Region: HTH_36; pfam13730 397945006494 Transcriptional regulator; Region: Rrf2; cl17282 397945006495 hypothetical protein; Provisional; Region: PRK09741 397945006496 large terminase protein; Provisional; Region: 17; PHA02533 397945006497 Terminase-like family; Region: Terminase_6; pfam03237 397945006498 chromosome segregation protein; Provisional; Region: PRK02224 397945006499 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 397945006500 active site 397945006501 catalytic triad [active] 397945006502 oxyanion hole [active] 397945006503 virion protein; Provisional; Region: V; PHA02564 397945006504 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 397945006505 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 397945006506 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 397945006507 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 397945006508 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945006509 P-loop; other site 397945006510 Magnesium ion binding site [ion binding]; other site 397945006511 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 397945006512 Magnesium ion binding site [ion binding]; other site 397945006513 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 397945006514 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 397945006515 Ligand Binding Site [chemical binding]; other site 397945006516 Replication initiation factor; Region: Rep_trans; pfam02486 397945006517 CTX phage RstB protein; Region: CTX_RstB; pfam07459 397945006518 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 397945006519 Zonular occludens toxin (Zot); Region: Zot; cl17485 397945006520 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 397945006521 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 397945006522 catalytic residues [active] 397945006523 catalytic nucleophile [active] 397945006524 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945006525 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945006526 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945006527 Synaptic Site I dimer interface [polypeptide binding]; other site 397945006528 DNA binding site [nucleotide binding] 397945006529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945006530 Transposase; Region: HTH_Tnp_1; pfam01527 397945006531 putative transposase OrfB; Reviewed; Region: PHA02517 397945006532 HTH-like domain; Region: HTH_21; pfam13276 397945006533 Integrase core domain; Region: rve; pfam00665 397945006534 Integrase core domain; Region: rve_3; pfam13683 397945006535 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 397945006536 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 397945006537 catalytic residues [active] 397945006538 catalytic nucleophile [active] 397945006539 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945006540 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945006541 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945006542 Synaptic Site I dimer interface [polypeptide binding]; other site 397945006543 DNA binding site [nucleotide binding] 397945006544 putative transposase OrfB; Reviewed; Region: PHA02517 397945006545 HTH-like domain; Region: HTH_21; pfam13276 397945006546 Integrase core domain; Region: rve; pfam00665 397945006547 Integrase core domain; Region: rve_3; pfam13683 397945006548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945006549 Transposase; Region: HTH_Tnp_1; pfam01527 397945006550 putative assembly protein; Region: PHA00350 397945006551 Zonular occludens toxin (Zot); Region: Zot; cl17485 397945006552 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 397945006553 putative major coat protein; Region: PHA00979 397945006554 Replication initiation factor; Region: Rep_trans; pfam02486 397945006555 CsbD-like; Region: CsbD; pfam05532 397945006556 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 397945006557 dinuclear metal binding motif [ion binding]; other site 397945006558 CheB methylesterase; Region: CheB_methylest; pfam01339 397945006559 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945006560 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 397945006561 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 397945006562 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 397945006563 putative active site [active] 397945006564 heme pocket [chemical binding]; other site 397945006565 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 397945006566 PAS domain; Region: PAS_10; pfam13596 397945006567 PAS domain S-box; Region: sensory_box; TIGR00229 397945006568 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 397945006569 putative active site [active] 397945006570 heme pocket [chemical binding]; other site 397945006571 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945006572 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 397945006573 putative active site [active] 397945006574 heme pocket [chemical binding]; other site 397945006575 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 397945006576 dimer interface [polypeptide binding]; other site 397945006577 phosphorylation site [posttranslational modification] 397945006578 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 397945006579 ATP binding site [chemical binding]; other site 397945006580 Mg2+ binding site [ion binding]; other site 397945006581 G-X-G motif; other site 397945006582 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945006583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006584 active site 397945006585 phosphorylation site [posttranslational modification] 397945006586 intermolecular recognition site; other site 397945006587 dimerization interface [polypeptide binding]; other site 397945006588 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 397945006589 RNA binding surface [nucleotide binding]; other site 397945006590 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 397945006591 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945006592 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945006593 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945006594 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945006595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945006596 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945006597 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945006598 dimerization interface [polypeptide binding]; other site 397945006599 substrate binding pocket [chemical binding]; other site 397945006600 Winged helix-turn helix; Region: HTH_29; pfam13551 397945006601 Homeodomain-like domain; Region: HTH_32; pfam13565 397945006602 Integrase core domain; Region: rve; pfam00665 397945006603 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945006604 Integrase core domain; Region: rve_3; pfam13683 397945006605 D-serine dehydratase; Provisional; Region: PRK02991 397945006606 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 397945006607 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945006608 catalytic residue [active] 397945006609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945006610 amidase; Provisional; Region: PRK07486 397945006611 Amidase; Region: Amidase; cl11426 397945006612 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945006613 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945006614 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945006615 Putative motility protein; Region: YjfB_motility; pfam14070 397945006616 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 397945006617 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945006618 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 397945006619 Uncharacterized conserved protein [Function unknown]; Region: COG1739 397945006620 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 397945006621 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 397945006622 azurin; Region: azurin; TIGR02695 397945006623 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006624 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006625 dimer interface [polypeptide binding]; other site 397945006626 putative CheW interface [polypeptide binding]; other site 397945006627 hypothetical protein; Provisional; Region: PRK01254 397945006628 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 397945006629 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 397945006630 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 397945006631 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945006632 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945006633 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 397945006634 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 397945006635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945006636 homodimer interface [polypeptide binding]; other site 397945006637 catalytic residue [active] 397945006638 excinuclease ABC subunit B; Provisional; Region: PRK05298 397945006639 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 397945006640 ATP binding site [chemical binding]; other site 397945006641 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 397945006642 nucleotide binding region [chemical binding]; other site 397945006643 ATP-binding site [chemical binding]; other site 397945006644 Ultra-violet resistance protein B; Region: UvrB; pfam12344 397945006645 UvrB/uvrC motif; Region: UVR; pfam02151 397945006646 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 397945006647 Rrf2 family protein; Region: rrf2_super; TIGR00738 397945006648 cysteine desulfurase; Provisional; Region: PRK14012 397945006649 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 397945006650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945006651 catalytic residue [active] 397945006652 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 397945006653 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 397945006654 trimerization site [polypeptide binding]; other site 397945006655 active site 397945006656 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 397945006657 co-chaperone HscB; Provisional; Region: hscB; PRK03578 397945006658 DnaJ domain; Region: DnaJ; pfam00226 397945006659 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 397945006660 chaperone protein HscA; Provisional; Region: hscA; PRK05183 397945006661 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 397945006662 nucleotide binding site [chemical binding]; other site 397945006663 putative NEF/HSP70 interaction site [polypeptide binding]; other site 397945006664 SBD interface [polypeptide binding]; other site 397945006665 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 397945006666 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 397945006667 catalytic loop [active] 397945006668 iron binding site [ion binding]; other site 397945006669 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 397945006670 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 397945006671 active site 397945006672 catalytic site [active] 397945006673 substrate binding site [chemical binding]; other site 397945006674 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 397945006675 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 397945006676 active site 397945006677 Zn binding site [ion binding]; other site 397945006678 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945006679 Predicted dehydrogenase [General function prediction only]; Region: COG0579 397945006680 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 397945006681 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 397945006682 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 397945006683 quinone interaction residues [chemical binding]; other site 397945006684 active site 397945006685 catalytic residues [active] 397945006686 FMN binding site [chemical binding]; other site 397945006687 substrate binding site [chemical binding]; other site 397945006688 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 397945006689 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945006690 active site 397945006691 dimer interface [polypeptide binding]; other site 397945006692 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 397945006693 catalytic residues [active] 397945006694 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 397945006695 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 397945006696 active site 397945006697 Zn binding site [ion binding]; other site 397945006698 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 397945006699 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 397945006700 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 397945006701 homodimer interface [polypeptide binding]; other site 397945006702 NADP binding site [chemical binding]; other site 397945006703 substrate binding site [chemical binding]; other site 397945006704 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 397945006705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006706 active site 397945006707 phosphorylation site [posttranslational modification] 397945006708 intermolecular recognition site; other site 397945006709 dimerization interface [polypeptide binding]; other site 397945006710 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 397945006711 DNA binding residues [nucleotide binding] 397945006712 dimerization interface [polypeptide binding]; other site 397945006713 PAS domain S-box; Region: sensory_box; TIGR00229 397945006714 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 397945006715 putative active site [active] 397945006716 heme pocket [chemical binding]; other site 397945006717 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 397945006718 dimer interface [polypeptide binding]; other site 397945006719 phosphorylation site [posttranslational modification] 397945006720 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 397945006721 ATP binding site [chemical binding]; other site 397945006722 Mg2+ binding site [ion binding]; other site 397945006723 G-X-G motif; other site 397945006724 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 397945006725 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 397945006726 dimer interface [polypeptide binding]; other site 397945006727 TPP-binding site [chemical binding]; other site 397945006728 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; Region: SucB_Actino; TIGR02927 397945006729 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 397945006730 E3 interaction surface; other site 397945006731 lipoyl attachment site [posttranslational modification]; other site 397945006732 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 397945006733 E3 interaction surface; other site 397945006734 lipoyl attachment site [posttranslational modification]; other site 397945006735 e3 binding domain; Region: E3_binding; pfam02817 397945006736 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 397945006737 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 397945006738 E3 interaction surface; other site 397945006739 lipoyl attachment site [posttranslational modification]; other site 397945006740 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 397945006741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945006742 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945006743 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 397945006744 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 397945006745 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945006746 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 397945006747 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 397945006748 Transglycosylase; Region: Transgly; pfam00912 397945006749 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 397945006750 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 397945006751 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 397945006752 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945006753 substrate binding pocket [chemical binding]; other site 397945006754 membrane-bound complex binding site; other site 397945006755 hinge residues; other site 397945006756 Leucine rich repeat; Region: LRR_8; pfam13855 397945006757 Leucine rich repeat; Region: LRR_8; pfam13855 397945006758 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945006759 active site 397945006760 ATP binding site [chemical binding]; other site 397945006761 substrate binding site [chemical binding]; other site 397945006762 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_4; cd04511 397945006763 nudix motif; other site 397945006764 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 397945006765 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945006766 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 397945006767 maleylacetoacetate isomerase; Region: maiA; TIGR01262 397945006768 C-terminal domain interface [polypeptide binding]; other site 397945006769 GSH binding site (G-site) [chemical binding]; other site 397945006770 putative dimer interface [polypeptide binding]; other site 397945006771 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 397945006772 dimer interface [polypeptide binding]; other site 397945006773 N-terminal domain interface [polypeptide binding]; other site 397945006774 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 397945006775 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 397945006776 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 397945006777 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 397945006778 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 397945006779 putative acyltransferase; Provisional; Region: PRK05790 397945006780 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 397945006781 dimer interface [polypeptide binding]; other site 397945006782 active site 397945006783 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 397945006784 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 397945006785 NAD(P) binding site [chemical binding]; other site 397945006786 homotetramer interface [polypeptide binding]; other site 397945006787 homodimer interface [polypeptide binding]; other site 397945006788 active site 397945006789 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 397945006790 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945006791 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945006792 ABC transporter; Region: ABC_tran_2; pfam12848 397945006793 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945006794 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 397945006795 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 397945006796 S-adenosylmethionine binding site [chemical binding]; other site 397945006797 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 397945006798 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 397945006799 metal binding site [ion binding]; metal-binding site 397945006800 dimer interface [polypeptide binding]; other site 397945006801 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 397945006802 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 397945006803 Walker A motif; other site 397945006804 ATP binding site [chemical binding]; other site 397945006805 Walker B motif; other site 397945006806 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 397945006807 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 397945006808 active site 397945006809 substrate binding site [chemical binding]; other site 397945006810 trimer interface [polypeptide binding]; other site 397945006811 CoA binding site [chemical binding]; other site 397945006812 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 397945006813 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 397945006814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945006815 homodimer interface [polypeptide binding]; other site 397945006816 catalytic residue [active] 397945006817 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 397945006818 dimerization interface [polypeptide binding]; other site 397945006819 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006821 dimer interface [polypeptide binding]; other site 397945006822 putative CheW interface [polypeptide binding]; other site 397945006823 ferredoxin; Provisional; Region: PRK08764 397945006824 Putative Fe-S cluster; Region: FeS; cl17515 397945006825 4Fe-4S binding domain; Region: Fer4; pfam00037 397945006826 4Fe-4S binding domain; Region: Fer4; cl02805 397945006827 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 397945006828 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 397945006829 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 397945006830 synthetase active site [active] 397945006831 NTP binding site [chemical binding]; other site 397945006832 metal binding site [ion binding]; metal-binding site 397945006833 CHASE domain; Region: CHASE; pfam03924 397945006834 PAS fold; Region: PAS_4; pfam08448 397945006835 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945006836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945006837 metal binding site [ion binding]; metal-binding site 397945006838 active site 397945006839 I-site; other site 397945006840 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 397945006841 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 397945006842 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 397945006843 FMN binding site [chemical binding]; other site 397945006844 active site 397945006845 catalytic residues [active] 397945006846 substrate binding site [chemical binding]; other site 397945006847 Transposase domain (DUF772); Region: DUF772; pfam05598 397945006848 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 397945006849 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 397945006850 CHASE3 domain; Region: CHASE3; pfam05227 397945006851 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 397945006852 dimerization interface [polypeptide binding]; other site 397945006853 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006854 dimer interface [polypeptide binding]; other site 397945006855 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 397945006856 putative CheW interface [polypeptide binding]; other site 397945006857 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945006858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006859 active site 397945006860 phosphorylation site [posttranslational modification] 397945006861 intermolecular recognition site; other site 397945006862 dimerization interface [polypeptide binding]; other site 397945006863 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 397945006864 DNA binding residues [nucleotide binding] 397945006865 dimerization interface [polypeptide binding]; other site 397945006866 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 397945006867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945006868 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945006869 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945006870 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 397945006871 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945006872 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 397945006873 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945006874 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 397945006875 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 397945006876 PAS domain; Region: PAS_9; pfam13426 397945006877 putative active site [active] 397945006878 heme pocket [chemical binding]; other site 397945006879 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945006880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945006881 metal binding site [ion binding]; metal-binding site 397945006882 active site 397945006883 I-site; other site 397945006884 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945006885 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945006886 PAS domain; Region: PAS; smart00091 397945006887 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945006888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945006889 DNA-binding site [nucleotide binding]; DNA binding site 397945006890 FCD domain; Region: FCD; pfam07729 397945006891 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 397945006892 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 397945006893 active site 397945006894 substrate binding site [chemical binding]; other site 397945006895 coenzyme B12 binding site [chemical binding]; other site 397945006896 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 397945006897 B12 binding site [chemical binding]; other site 397945006898 cobalt ligand [ion binding]; other site 397945006899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945006900 Coenzyme A binding pocket [chemical binding]; other site 397945006901 membrane ATPase/protein kinase; Provisional; Region: PRK09435 397945006902 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 397945006903 Walker A; other site 397945006904 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 397945006905 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 397945006906 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 397945006907 NUC130/3NT domain; Region: NUC130_3NT; pfam08158 397945006908 LabA_like proteins; Region: LabA_like; cd06167 397945006909 putative metal binding site [ion binding]; other site 397945006910 Uncharacterized conserved protein [Function unknown]; Region: COG1432 397945006911 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 397945006912 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945006913 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 397945006914 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 397945006915 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 397945006916 carboxyltransferase (CT) interaction site; other site 397945006917 biotinylation site [posttranslational modification]; other site 397945006918 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 397945006919 dimer interface [polypeptide binding]; other site 397945006920 substrate binding site [chemical binding]; other site 397945006921 metal binding site [ion binding]; metal-binding site 397945006922 biotin synthase; Region: bioB; TIGR00433 397945006923 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 397945006924 FeS/SAM binding site; other site 397945006925 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 397945006926 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 397945006927 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 397945006928 active site 397945006929 DNA binding site [nucleotide binding] 397945006930 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 397945006931 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 397945006932 DNA binding site [nucleotide binding] 397945006933 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 397945006934 nucleotide binding site [chemical binding]; other site 397945006935 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 397945006936 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 397945006937 putative DNA binding site [nucleotide binding]; other site 397945006938 putative homodimer interface [polypeptide binding]; other site 397945006939 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 397945006940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945006941 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 397945006942 dimerization interface [polypeptide binding]; other site 397945006943 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945006944 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 397945006945 dimerization interface [polypeptide binding]; other site 397945006946 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 397945006947 dimer interface [polypeptide binding]; other site 397945006948 phosphorylation site [posttranslational modification] 397945006949 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 397945006950 ATP binding site [chemical binding]; other site 397945006951 Mg2+ binding site [ion binding]; other site 397945006952 G-X-G motif; other site 397945006953 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945006954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006955 active site 397945006956 phosphorylation site [posttranslational modification] 397945006957 intermolecular recognition site; other site 397945006958 dimerization interface [polypeptide binding]; other site 397945006959 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 397945006960 DNA binding site [nucleotide binding] 397945006961 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 397945006962 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945006963 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 397945006964 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 397945006965 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945006966 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945006967 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945006968 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945006969 Low molecular weight phosphatase family; Region: LMWPc; cd00115 397945006970 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 397945006971 active site 397945006972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945006973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945006974 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 397945006975 putative effector binding pocket; other site 397945006976 dimerization interface [polypeptide binding]; other site 397945006977 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945006978 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 397945006979 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945006980 putative active site [active] 397945006981 heme pocket [chemical binding]; other site 397945006982 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 397945006983 ATP binding site [chemical binding]; other site 397945006984 Mg2+ binding site [ion binding]; other site 397945006985 G-X-G motif; other site 397945006986 Response regulator receiver domain; Region: Response_reg; pfam00072 397945006987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945006988 active site 397945006989 phosphorylation site [posttranslational modification] 397945006990 intermolecular recognition site; other site 397945006991 dimerization interface [polypeptide binding]; other site 397945006992 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 397945006993 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 397945006994 Walker A/P-loop; other site 397945006995 ATP binding site [chemical binding]; other site 397945006996 Q-loop/lid; other site 397945006997 ABC transporter signature motif; other site 397945006998 Walker B; other site 397945006999 D-loop; other site 397945007000 H-loop/switch region; other site 397945007001 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 397945007002 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 397945007003 dimer interface [polypeptide binding]; other site 397945007004 conserved gate region; other site 397945007005 ABC-ATPase subunit interface; other site 397945007006 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945007007 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945007008 dimer interface [polypeptide binding]; other site 397945007009 putative CheW interface [polypeptide binding]; other site 397945007010 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 397945007011 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 397945007012 Predicted flavoprotein [General function prediction only]; Region: COG0431 397945007013 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945007014 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 397945007015 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945007016 LysR family transcriptional regulator; Provisional; Region: PRK14997 397945007017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945007018 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 397945007019 putative effector binding pocket; other site 397945007020 putative dimerization interface [polypeptide binding]; other site 397945007021 Serine hydrolase; Region: Ser_hydrolase; pfam06821 397945007022 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945007023 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 397945007024 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945007025 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 397945007026 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 397945007027 dimer interface [polypeptide binding]; other site 397945007028 conserved gate region; other site 397945007029 putative PBP binding loops; other site 397945007030 ABC-ATPase subunit interface; other site 397945007031 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 397945007032 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 397945007033 dimer interface [polypeptide binding]; other site 397945007034 conserved gate region; other site 397945007035 putative PBP binding loops; other site 397945007036 ABC-ATPase subunit interface; other site 397945007037 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 397945007038 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 397945007039 Walker A/P-loop; other site 397945007040 ATP binding site [chemical binding]; other site 397945007041 Q-loop/lid; other site 397945007042 ABC transporter signature motif; other site 397945007043 Walker B; other site 397945007044 D-loop; other site 397945007045 H-loop/switch region; other site 397945007046 TOBE-like domain; Region: TOBE_3; pfam12857 397945007047 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 397945007048 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 397945007049 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 397945007050 active site residue [active] 397945007051 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 397945007052 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945007053 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 397945007054 putative N-terminal domain interface [polypeptide binding]; other site 397945007055 putative dimer interface [polypeptide binding]; other site 397945007056 putative substrate binding pocket (H-site) [chemical binding]; other site 397945007057 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945007058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945007059 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 397945007060 dimerization interface [polypeptide binding]; other site 397945007061 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 397945007062 N-acetylglutamate synthase; Validated; Region: PRK05279 397945007063 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 397945007064 putative feedback inhibition sensing region; other site 397945007065 putative nucleotide binding site [chemical binding]; other site 397945007066 putative substrate binding site [chemical binding]; other site 397945007067 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945007068 Coenzyme A binding pocket [chemical binding]; other site 397945007069 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945007070 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945007071 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 397945007072 ATP binding site [chemical binding]; other site 397945007073 putative Mg++ binding site [ion binding]; other site 397945007074 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 397945007075 nucleotide binding region [chemical binding]; other site 397945007076 ATP-binding site [chemical binding]; other site 397945007077 Helicase associated domain (HA2); Region: HA2; pfam04408 397945007078 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 397945007079 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 397945007080 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 397945007081 LexA repressor; Validated; Region: PRK00215 397945007082 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 397945007083 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 397945007084 Catalytic site [active] 397945007085 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 397945007086 active site 397945007087 homodimer interface [polypeptide binding]; other site 397945007088 homotetramer interface [polypeptide binding]; other site 397945007089 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945007090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945007091 Integrase core domain; Region: rve; pfam00665 397945007092 Integrase core domain; Region: rve_3; pfam13683 397945007093 adenylate kinase; Reviewed; Region: adk; PRK00279 397945007094 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 397945007095 AMP-binding site [chemical binding]; other site 397945007096 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 397945007097 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 397945007098 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 397945007099 Ligand binding site; other site 397945007100 oligomer interface; other site 397945007101 Uncharacterized conserved protein [Function unknown]; Region: COG2835 397945007102 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 397945007103 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 397945007104 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 397945007105 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 397945007106 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 397945007107 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 397945007108 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 397945007109 generic binding surface II; other site 397945007110 generic binding surface I; other site 397945007111 superoxide dismutase; Provisional; Region: PRK10543 397945007112 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 397945007113 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 397945007114 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 397945007115 isocitrate dehydrogenase; Validated; Region: PRK07362 397945007116 isocitrate dehydrogenase; Reviewed; Region: PRK07006 397945007117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945007118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945007119 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 397945007120 putative effector binding pocket; other site 397945007121 dimerization interface [polypeptide binding]; other site 397945007122 glutathionine S-transferase; Provisional; Region: PRK10542 397945007123 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 397945007124 C-terminal domain interface [polypeptide binding]; other site 397945007125 GSH binding site (G-site) [chemical binding]; other site 397945007126 dimer interface [polypeptide binding]; other site 397945007127 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945007128 dimer interface [polypeptide binding]; other site 397945007129 N-terminal domain interface [polypeptide binding]; other site 397945007130 substrate binding pocket (H-site) [chemical binding]; other site 397945007131 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 397945007132 active site 1 [active] 397945007133 dimer interface [polypeptide binding]; other site 397945007134 hexamer interface [polypeptide binding]; other site 397945007135 active site 2 [active] 397945007136 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 397945007137 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945007138 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 397945007139 putative substrate translocation pore; other site 397945007140 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 397945007141 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 397945007142 DNA binding residues [nucleotide binding] 397945007143 putative dimer interface [polypeptide binding]; other site 397945007144 putative metal binding residues [ion binding]; other site 397945007145 H-NS histone family; Region: Histone_HNS; pfam00816 397945007146 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 397945007147 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 397945007148 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 397945007149 active site 397945007150 catalytic triad [active] 397945007151 Putative zinc-finger; Region: zf-HC2; pfam13490 397945007152 RNA polymerase sigma factor; Provisional; Region: PRK12515 397945007153 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 397945007154 DNA binding residues [nucleotide binding] 397945007155 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 397945007156 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945007157 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 397945007158 putative active site [active] 397945007159 catalytic residue [active] 397945007160 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945007161 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 397945007162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945007163 DNA-binding site [nucleotide binding]; DNA binding site 397945007164 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 397945007165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007166 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 397945007167 NAD(P) binding site [chemical binding]; other site 397945007168 active site 397945007169 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945007170 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945007171 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 397945007172 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 397945007173 DctM-like transporters; Region: DctM; pfam06808 397945007174 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 397945007175 galactarate dehydratase; Region: galactar-dH20; TIGR03248 397945007176 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 397945007177 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 397945007178 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 397945007179 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945007180 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 397945007181 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 397945007182 N-terminal plug; other site 397945007183 ligand-binding site [chemical binding]; other site 397945007184 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 397945007185 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 397945007186 E-class dimer interface [polypeptide binding]; other site 397945007187 P-class dimer interface [polypeptide binding]; other site 397945007188 active site 397945007189 Cu2+ binding site [ion binding]; other site 397945007190 Zn2+ binding site [ion binding]; other site 397945007191 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 397945007192 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 397945007193 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945007194 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945007195 active site 397945007196 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 397945007197 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 397945007198 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 397945007199 tetrameric interface [polypeptide binding]; other site 397945007200 NAD binding site [chemical binding]; other site 397945007201 catalytic residues [active] 397945007202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945007203 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945007204 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945007205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945007206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945007207 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 397945007208 dimerization interface [polypeptide binding]; other site 397945007209 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 397945007210 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 397945007211 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 397945007212 EF-hand domain pair; Region: EF_hand_5; pfam13499 397945007213 Ca2+ binding site [ion binding]; other site 397945007214 EF-hand domain pair; Region: EF_hand_5; pfam13499 397945007215 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 397945007216 Ca2+ binding site [ion binding]; other site 397945007217 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 397945007218 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 397945007219 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 397945007220 catalytic site [active] 397945007221 subunit interface [polypeptide binding]; other site 397945007222 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945007223 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 397945007224 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 397945007225 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 397945007226 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945007227 ATP-grasp domain; Region: ATP-grasp_4; cl17255 397945007228 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 397945007229 IMP binding site; other site 397945007230 dimer interface [polypeptide binding]; other site 397945007231 interdomain contacts; other site 397945007232 partial ornithine binding site; other site 397945007233 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 397945007234 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 397945007235 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945007236 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 397945007237 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 397945007238 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 397945007239 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 397945007240 S-adenosylmethionine binding site [chemical binding]; other site 397945007241 FtsH Extracellular; Region: FtsH_ext; pfam06480 397945007242 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 397945007243 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 397945007244 Walker A motif; other site 397945007245 ATP binding site [chemical binding]; other site 397945007246 Walker B motif; other site 397945007247 arginine finger; other site 397945007248 Peptidase family M41; Region: Peptidase_M41; pfam01434 397945007249 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 397945007250 dihydropteroate synthase; Region: DHPS; TIGR01496 397945007251 substrate binding pocket [chemical binding]; other site 397945007252 dimer interface [polypeptide binding]; other site 397945007253 inhibitor binding site; inhibition site 397945007254 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 397945007255 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 397945007256 active site 397945007257 substrate binding site [chemical binding]; other site 397945007258 metal binding site [ion binding]; metal-binding site 397945007259 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 397945007260 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945007261 putative active site [active] 397945007262 heme pocket [chemical binding]; other site 397945007263 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 397945007264 putative active site [active] 397945007265 heme pocket [chemical binding]; other site 397945007266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945007267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007268 metal binding site [ion binding]; metal-binding site 397945007269 active site 397945007270 I-site; other site 397945007271 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 397945007272 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 397945007273 polyphosphate kinase; Provisional; Region: PRK05443 397945007274 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 397945007275 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 397945007276 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945007277 putative active site [active] 397945007278 catalytic site [active] 397945007279 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 397945007280 putative domain interface [polypeptide binding]; other site 397945007281 putative active site [active] 397945007282 catalytic site [active] 397945007283 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 397945007284 catalytic core [active] 397945007285 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 397945007286 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 397945007287 PBP superfamily domain; Region: PBP_like_2; cl17296 397945007288 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 397945007289 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 397945007290 dimer interface [polypeptide binding]; other site 397945007291 conserved gate region; other site 397945007292 putative PBP binding loops; other site 397945007293 ABC-ATPase subunit interface; other site 397945007294 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 397945007295 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 397945007296 dimer interface [polypeptide binding]; other site 397945007297 conserved gate region; other site 397945007298 putative PBP binding loops; other site 397945007299 ABC-ATPase subunit interface; other site 397945007300 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 397945007301 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 397945007302 Walker A/P-loop; other site 397945007303 ATP binding site [chemical binding]; other site 397945007304 Q-loop/lid; other site 397945007305 ABC transporter signature motif; other site 397945007306 Walker B; other site 397945007307 D-loop; other site 397945007308 H-loop/switch region; other site 397945007309 transcriptional regulator PhoU; Provisional; Region: PRK11115 397945007310 PhoU domain; Region: PhoU; pfam01895 397945007311 PhoU domain; Region: PhoU; pfam01895 397945007312 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 397945007313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945007314 active site 397945007315 phosphorylation site [posttranslational modification] 397945007316 intermolecular recognition site; other site 397945007317 dimerization interface [polypeptide binding]; other site 397945007318 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 397945007319 DNA binding site [nucleotide binding] 397945007320 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 397945007321 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945007322 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 397945007323 putative active site [active] 397945007324 heme pocket [chemical binding]; other site 397945007325 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 397945007326 dimer interface [polypeptide binding]; other site 397945007327 phosphorylation site [posttranslational modification] 397945007328 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 397945007329 ATP binding site [chemical binding]; other site 397945007330 Mg2+ binding site [ion binding]; other site 397945007331 G-X-G motif; other site 397945007332 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 397945007333 putative efflux protein, MATE family; Region: matE; TIGR00797 397945007334 cation binding site [ion binding]; other site 397945007335 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 397945007336 exonuclease subunit SbcD; Provisional; Region: PRK10966 397945007337 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 397945007338 active site 397945007339 metal binding site [ion binding]; metal-binding site 397945007340 DNA binding site [nucleotide binding] 397945007341 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 397945007342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945007343 Walker A/P-loop; other site 397945007344 ATP binding site [chemical binding]; other site 397945007345 Q-loop/lid; other site 397945007346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945007347 Walker B; other site 397945007348 D-loop; other site 397945007349 H-loop/switch region; other site 397945007350 transcription termination factor Rho; Provisional; Region: rho; PRK09376 397945007351 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 397945007352 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 397945007353 RNA binding site [nucleotide binding]; other site 397945007354 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 397945007355 multimer interface [polypeptide binding]; other site 397945007356 Walker A motif; other site 397945007357 ATP binding site [chemical binding]; other site 397945007358 Walker B motif; other site 397945007359 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 397945007360 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 397945007361 catalytic residues [active] 397945007362 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 397945007363 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 397945007364 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 397945007365 Part of AAA domain; Region: AAA_19; pfam13245 397945007366 Family description; Region: UvrD_C_2; pfam13538 397945007367 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 397945007368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945007369 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 397945007370 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 397945007371 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945007372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945007373 dimer interface [polypeptide binding]; other site 397945007374 putative CheW interface [polypeptide binding]; other site 397945007375 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 397945007376 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 397945007377 Walker A motif; other site 397945007378 ATP binding site [chemical binding]; other site 397945007379 Walker B motif; other site 397945007380 arginine finger; other site 397945007381 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 397945007382 hypothetical protein; Validated; Region: PRK00153 397945007383 recombination protein RecR; Reviewed; Region: recR; PRK00076 397945007384 RecR protein; Region: RecR; pfam02132 397945007385 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 397945007386 putative active site [active] 397945007387 putative metal-binding site [ion binding]; other site 397945007388 tetramer interface [polypeptide binding]; other site 397945007389 MAPEG family; Region: MAPEG; cl09190 397945007390 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 397945007391 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 397945007392 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 397945007393 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 397945007394 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945007395 catalytic residue [active] 397945007396 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 397945007397 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 397945007398 Methyltransferase domain; Region: Methyltransf_11; pfam08241 397945007399 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 397945007400 RNA/DNA hybrid binding site [nucleotide binding]; other site 397945007401 active site 397945007402 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945007403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945007404 Integrase core domain; Region: rve; pfam00665 397945007405 Integrase core domain; Region: rve_3; pfam13683 397945007406 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 397945007407 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 397945007408 catalytic residues [active] 397945007409 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 397945007410 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 397945007411 dimer interface [polypeptide binding]; other site 397945007412 putative functional site; other site 397945007413 putative MPT binding site; other site 397945007414 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 397945007415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945007416 Coenzyme A binding pocket [chemical binding]; other site 397945007417 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 397945007418 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 397945007419 GTP binding site; other site 397945007420 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 397945007421 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 397945007422 FeS/SAM binding site; other site 397945007423 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 397945007424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007425 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 397945007426 NAD(P) binding site [chemical binding]; other site 397945007427 active site 397945007428 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 397945007429 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 397945007430 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 397945007431 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 397945007432 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945007433 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 397945007434 NAD(P) binding site [chemical binding]; other site 397945007435 catalytic residues [active] 397945007436 catalytic residues [active] 397945007437 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945007438 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 397945007439 ligand binding site [chemical binding]; other site 397945007440 flexible hinge region; other site 397945007441 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 397945007442 non-specific DNA interactions [nucleotide binding]; other site 397945007443 DNA binding site [nucleotide binding] 397945007444 sequence specific DNA binding site [nucleotide binding]; other site 397945007445 putative cAMP binding site [chemical binding]; other site 397945007446 Protein of unknown function (DUF962); Region: DUF962; cl01879 397945007447 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 397945007448 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 397945007449 putative metal binding site [ion binding]; other site 397945007450 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 397945007451 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 397945007452 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 397945007453 dimer interface [polypeptide binding]; other site 397945007454 substrate binding site [chemical binding]; other site 397945007455 metal binding sites [ion binding]; metal-binding site 397945007456 Uncharacterized conserved protein [Function unknown]; Region: COG4544 397945007457 Y-family of DNA polymerases; Region: PolY; cl12025 397945007458 DNA binding site [nucleotide binding] 397945007459 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 397945007460 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 397945007461 putative active site [active] 397945007462 putative PHP Thumb interface [polypeptide binding]; other site 397945007463 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 397945007464 generic binding surface II; other site 397945007465 generic binding surface I; other site 397945007466 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 397945007467 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 397945007468 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945007469 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 397945007470 probable active site [active] 397945007471 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 397945007472 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 397945007473 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945007474 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 397945007475 P-loop; other site 397945007476 Magnesium ion binding site [ion binding]; other site 397945007477 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 397945007478 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 397945007479 ParB-like nuclease domain; Region: ParBc; cl02129 397945007480 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 397945007481 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 397945007482 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional; Region: FHY3; PLN03097 397945007483 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 397945007484 dimer interface [polypeptide binding]; other site 397945007485 ssDNA binding site [nucleotide binding]; other site 397945007486 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945007487 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 397945007488 ATP binding site [chemical binding]; other site 397945007489 putative Mg++ binding site [ion binding]; other site 397945007490 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 397945007491 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 397945007492 nucleotide binding region [chemical binding]; other site 397945007493 ATP-binding site [chemical binding]; other site 397945007494 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 397945007495 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 397945007496 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945007497 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 397945007498 ATP binding site [chemical binding]; other site 397945007499 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945007500 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 397945007501 putative Mg++ binding site [ion binding]; other site 397945007502 nucleotide binding region [chemical binding]; other site 397945007503 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 397945007504 ATP-binding site [chemical binding]; other site 397945007505 multiple promoter invertase; Provisional; Region: mpi; PRK13413 397945007506 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 397945007507 catalytic residues [active] 397945007508 catalytic nucleophile [active] 397945007509 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945007510 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945007511 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945007512 Synaptic Site I dimer interface [polypeptide binding]; other site 397945007513 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1569 397945007514 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 397945007515 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 397945007516 hypothetical protein; Provisional; Region: PRK10396 397945007517 yecA family protein; Region: ygfB_yecA; TIGR02292 397945007518 SEC-C motif; Region: SEC-C; pfam02810 397945007519 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945007520 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945007521 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945007522 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945007523 YopJ Serine/Threonine acetyltransferase; Region: YopJ; pfam03421 397945007524 putative transposase OrfB; Reviewed; Region: PHA02517 397945007525 HTH-like domain; Region: HTH_21; pfam13276 397945007526 Integrase core domain; Region: rve; pfam00665 397945007527 Integrase core domain; Region: rve_3; pfam13683 397945007528 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 397945007529 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 397945007530 Walker A motif; other site 397945007531 ATP binding site [chemical binding]; other site 397945007532 Walker B motif; other site 397945007533 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 397945007534 Walker B motif; other site 397945007535 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945007536 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945007537 Type II/IV secretion system protein; Region: T2SE; pfam00437 397945007538 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 397945007539 Walker A motif; other site 397945007540 ATP binding site [chemical binding]; other site 397945007541 Walker B motif; other site 397945007542 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 397945007543 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945007544 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 397945007545 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 397945007546 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 397945007547 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945007548 catalytic residue [active] 397945007549 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 397945007550 dimerization domain [polypeptide binding]; other site 397945007551 dimer interface [polypeptide binding]; other site 397945007552 catalytic residues [active] 397945007553 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 397945007554 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 397945007555 active site 397945007556 DNA binding site [nucleotide binding] 397945007557 Int/Topo IB signature motif; other site 397945007558 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 397945007559 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 397945007560 putative active site [active] 397945007561 putative PHP Thumb interface [polypeptide binding]; other site 397945007562 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 397945007563 generic binding surface I; other site 397945007564 generic binding surface II; other site 397945007565 DNA Polymerase Y-family; Region: PolY_like; cd03468 397945007566 DNA binding site [nucleotide binding] 397945007567 Uncharacterized conserved protein [Function unknown]; Region: COG4544 397945007568 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945007569 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945007570 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945007571 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 397945007572 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 397945007573 RHS Repeat; Region: RHS_repeat; cl11982 397945007574 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945007575 RHS Repeat; Region: RHS_repeat; pfam05593 397945007576 RHS Repeat; Region: RHS_repeat; pfam05593 397945007577 RHS Repeat; Region: RHS_repeat; pfam05593 397945007578 RHS Repeat; Region: RHS_repeat; pfam05593 397945007579 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945007580 RHS Repeat; Region: RHS_repeat; pfam05593 397945007581 RHS protein; Region: RHS; pfam03527 397945007582 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945007583 AP2 domain; Region: AP2; pfam00847 397945007584 SprT homologues; Region: SprT; cl01182 397945007585 SprT-like family; Region: SprT-like; pfam10263 397945007586 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 397945007587 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 397945007588 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 397945007589 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 397945007590 TraU protein; Region: TraU; cl06067 397945007591 TraU protein; Region: TraU; cl06067 397945007592 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 397945007593 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 397945007594 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 397945007595 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 397945007596 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 397945007597 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 397945007598 integrating conjugative element protein, PFL_4704 family; Region: conj_TIGR03749 397945007599 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 397945007600 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 397945007601 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 397945007602 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 397945007603 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 397945007604 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 397945007605 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 397945007606 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 397945007607 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 397945007608 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 397945007609 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 397945007610 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 397945007611 Putative helicase; Region: TraI_2; pfam07514 397945007612 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 397945007613 Winged helix-turn helix; Region: HTH_29; pfam13551 397945007614 Homeodomain-like domain; Region: HTH_32; pfam13565 397945007615 Integrase core domain; Region: rve; pfam00665 397945007616 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945007617 Integrase core domain; Region: rve_3; pfam13683 397945007618 HD domain; Region: HD_3; cl17350 397945007619 methionine synthase; Provisional; Region: PRK01207 397945007620 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 397945007621 substrate binding site [chemical binding]; other site 397945007622 THF binding site; other site 397945007623 zinc-binding site [ion binding]; other site 397945007624 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 397945007625 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945007626 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 397945007627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945007628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945007629 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 397945007630 putative dimerization interface [polypeptide binding]; other site 397945007631 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 397945007632 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 397945007633 Walker A/P-loop; other site 397945007634 ATP binding site [chemical binding]; other site 397945007635 Q-loop/lid; other site 397945007636 ABC transporter signature motif; other site 397945007637 Walker B; other site 397945007638 D-loop; other site 397945007639 H-loop/switch region; other site 397945007640 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 397945007641 active site 397945007642 Zn binding site [ion binding]; other site 397945007643 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 397945007644 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 397945007645 S-adenosylmethionine binding site [chemical binding]; other site 397945007646 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 397945007647 Radical SAM superfamily; Region: Radical_SAM; pfam04055 397945007648 FeS/SAM binding site; other site 397945007649 classical (c) SDRs; Region: SDR_c; cd05233 397945007650 NAD(P) binding site [chemical binding]; other site 397945007651 active site 397945007652 Predicted membrane protein [Function unknown]; Region: COG1511 397945007653 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 397945007654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007655 NAD(P) binding site [chemical binding]; other site 397945007656 active site 397945007657 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945007658 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 397945007659 dimer interface [polypeptide binding]; other site 397945007660 active site 397945007661 metal binding site [ion binding]; metal-binding site 397945007662 glutathione binding site [chemical binding]; other site 397945007663 Entner-Doudoroff aldolase; Region: eda; TIGR01182 397945007664 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 397945007665 active site 397945007666 intersubunit interface [polypeptide binding]; other site 397945007667 catalytic residue [active] 397945007668 phosphogluconate dehydratase; Validated; Region: PRK09054 397945007669 6-phosphogluconate dehydratase; Region: edd; TIGR01196 397945007670 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945007671 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 397945007672 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 397945007673 DctM-like transporters; Region: DctM; pfam06808 397945007674 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 397945007675 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 397945007676 AAA domain; Region: AAA_33; pfam13671 397945007677 ATP-binding site [chemical binding]; other site 397945007678 Gluconate-6-phosphate binding site [chemical binding]; other site 397945007679 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945007680 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945007681 DNA binding site [nucleotide binding] 397945007682 domain linker motif; other site 397945007683 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 397945007684 putative ligand binding site [chemical binding]; other site 397945007685 putative dimerization interface [polypeptide binding]; other site 397945007686 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 397945007687 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 397945007688 ligand binding site [chemical binding]; other site 397945007689 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 397945007690 putative active site pocket [active] 397945007691 dimerization interface [polypeptide binding]; other site 397945007692 putative catalytic residue [active] 397945007693 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 397945007694 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 397945007695 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 397945007696 Predicted permeases [General function prediction only]; Region: COG0679 397945007697 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 397945007698 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945007699 NAD binding site [chemical binding]; other site 397945007700 catalytic residues [active] 397945007701 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945007702 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945007703 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 397945007704 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 397945007705 N-terminal plug; other site 397945007706 ligand-binding site [chemical binding]; other site 397945007707 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 397945007708 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 397945007709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945007710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945007711 Walker A/P-loop; other site 397945007712 ATP binding site [chemical binding]; other site 397945007713 Q-loop/lid; other site 397945007714 ABC transporter signature motif; other site 397945007715 Walker B; other site 397945007716 D-loop; other site 397945007717 H-loop/switch region; other site 397945007718 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 397945007719 putative DNA binding helix; other site 397945007720 methionine sulfoxide reductase A; Provisional; Region: PRK14054 397945007721 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945007722 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945007723 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 397945007724 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 397945007725 S-adenosylmethionine binding site [chemical binding]; other site 397945007726 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 397945007727 active site residue [active] 397945007728 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 397945007729 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 397945007730 CoA binding domain; Region: CoA_binding_2; pfam13380 397945007731 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 397945007732 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 397945007733 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945007734 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 397945007735 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 397945007736 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 397945007737 Predicted amidohydrolase [General function prediction only]; Region: COG0388 397945007738 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 397945007739 active site 397945007740 catalytic triad [active] 397945007741 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 397945007742 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 397945007743 active site 397945007744 substrate binding site [chemical binding]; other site 397945007745 metal binding site [ion binding]; metal-binding site 397945007746 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 397945007747 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 397945007748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945007749 AlkA N-terminal domain; Region: AlkA_N; pfam06029 397945007750 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 397945007751 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945007752 minor groove reading motif; other site 397945007753 helix-hairpin-helix signature motif; other site 397945007754 active site 397945007755 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 397945007756 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 397945007757 DNA binding site [nucleotide binding] 397945007758 active site 397945007759 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 397945007760 EamA-like transporter family; Region: EamA; pfam00892 397945007761 EamA-like transporter family; Region: EamA; pfam00892 397945007762 PAS fold; Region: PAS_3; pfam08447 397945007763 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945007764 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 397945007765 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945007766 putative active site [active] 397945007767 heme pocket [chemical binding]; other site 397945007768 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945007769 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945007770 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945007771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007772 metal binding site [ion binding]; metal-binding site 397945007773 active site 397945007774 I-site; other site 397945007775 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 397945007776 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 397945007777 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945007778 acyl-activating enzyme (AAE) consensus motif; other site 397945007779 AMP binding site [chemical binding]; other site 397945007780 active site 397945007781 CoA binding site [chemical binding]; other site 397945007782 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 397945007783 Isochorismatase family; Region: Isochorismatase; pfam00857 397945007784 catalytic triad [active] 397945007785 dimer interface [polypeptide binding]; other site 397945007786 conserved cis-peptide bond; other site 397945007787 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 397945007788 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 397945007789 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 397945007790 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 397945007791 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 397945007792 NlpC/P60 family; Region: NLPC_P60; pfam00877 397945007793 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 397945007794 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 397945007795 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 397945007796 ATP binding site [chemical binding]; other site 397945007797 putative Mg++ binding site [ion binding]; other site 397945007798 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 397945007799 nucleotide binding region [chemical binding]; other site 397945007800 ATP-binding site [chemical binding]; other site 397945007801 EVE domain; Region: EVE; cl00728 397945007802 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 397945007803 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 397945007804 substrate binding pocket [chemical binding]; other site 397945007805 membrane-bound complex binding site; other site 397945007806 PAAR motif; Region: PAAR_motif; pfam05488 397945007807 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945007808 RHS Repeat; Region: RHS_repeat; pfam05593 397945007809 RHS Repeat; Region: RHS_repeat; pfam05593 397945007810 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945007811 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945007812 RHS protein; Region: RHS; pfam03527 397945007813 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945007814 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 397945007815 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945007816 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945007817 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945007818 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945007819 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945007820 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 397945007821 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 397945007822 nucleotide binding pocket [chemical binding]; other site 397945007823 K-X-D-G motif; other site 397945007824 catalytic site [active] 397945007825 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 397945007826 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 397945007827 Helix-hairpin-helix motif; Region: HHH; pfam00633 397945007828 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 397945007829 Dimer interface [polypeptide binding]; other site 397945007830 BRCT sequence motif; other site 397945007831 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 397945007832 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945007833 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 397945007834 Walker A/P-loop; other site 397945007835 ATP binding site [chemical binding]; other site 397945007836 Q-loop/lid; other site 397945007837 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 397945007838 Q-loop/lid; other site 397945007839 ABC transporter signature motif; other site 397945007840 Walker B; other site 397945007841 D-loop; other site 397945007842 H-loop/switch region; other site 397945007843 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 397945007844 nucleophilic elbow; other site 397945007845 catalytic triad; other site 397945007846 hypothetical protein; Provisional; Region: PRK02237 397945007847 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 397945007848 PAS domain S-box; Region: sensory_box; TIGR00229 397945007849 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 397945007850 putative active site [active] 397945007851 heme pocket [chemical binding]; other site 397945007852 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945007853 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007854 metal binding site [ion binding]; metal-binding site 397945007855 active site 397945007856 I-site; other site 397945007857 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 397945007858 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 397945007859 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 397945007860 transmembrane helices; other site 397945007861 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 397945007862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 397945007863 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 397945007864 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 397945007865 Walker A/P-loop; other site 397945007866 ATP binding site [chemical binding]; other site 397945007867 Q-loop/lid; other site 397945007868 ABC transporter signature motif; other site 397945007869 Walker B; other site 397945007870 D-loop; other site 397945007871 H-loop/switch region; other site 397945007872 maltose O-acetyltransferase; Provisional; Region: PRK10092 397945007873 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 397945007874 active site 397945007875 substrate binding site [chemical binding]; other site 397945007876 trimer interface [polypeptide binding]; other site 397945007877 CoA binding site [chemical binding]; other site 397945007878 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 397945007879 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 397945007880 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 397945007881 DNA binding residues [nucleotide binding] 397945007882 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 397945007883 IHF - DNA interface [nucleotide binding]; other site 397945007884 IHF dimer interface [polypeptide binding]; other site 397945007885 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 397945007886 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 397945007887 putative tRNA-binding site [nucleotide binding]; other site 397945007888 B3/4 domain; Region: B3_4; pfam03483 397945007889 tRNA synthetase B5 domain; Region: B5; smart00874 397945007890 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 397945007891 dimer interface [polypeptide binding]; other site 397945007892 motif 1; other site 397945007893 motif 3; other site 397945007894 motif 2; other site 397945007895 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 397945007896 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 397945007897 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 397945007898 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 397945007899 dimer interface [polypeptide binding]; other site 397945007900 motif 1; other site 397945007901 active site 397945007902 motif 2; other site 397945007903 motif 3; other site 397945007904 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 397945007905 23S rRNA binding site [nucleotide binding]; other site 397945007906 L21 binding site [polypeptide binding]; other site 397945007907 L13 binding site [polypeptide binding]; other site 397945007908 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 397945007909 translation initiation factor IF-3; Region: infC; TIGR00168 397945007910 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 397945007911 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 397945007912 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 397945007913 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 397945007914 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 397945007915 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 397945007916 active site 397945007917 dimer interface [polypeptide binding]; other site 397945007918 motif 1; other site 397945007919 motif 2; other site 397945007920 motif 3; other site 397945007921 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 397945007922 anticodon binding site; other site 397945007923 isocitrate lyase; Provisional; Region: PRK15063 397945007924 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 397945007925 tetramer interface [polypeptide binding]; other site 397945007926 active site 397945007927 Mg2+/Mn2+ binding site [ion binding]; other site 397945007928 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 397945007929 putative active site pocket [active] 397945007930 dimerization interface [polypeptide binding]; other site 397945007931 putative catalytic residue [active] 397945007932 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 397945007933 EamA-like transporter family; Region: EamA; pfam00892 397945007934 EamA-like transporter family; Region: EamA; pfam00892 397945007935 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945007936 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 397945007937 putative DNA binding site [nucleotide binding]; other site 397945007938 putative Zn2+ binding site [ion binding]; other site 397945007939 AsnC family; Region: AsnC_trans_reg; pfam01037 397945007940 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 397945007941 SWIB/MDM2 domain; Region: SWIB; pfam02201 397945007942 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 397945007943 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 397945007944 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 397945007945 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 397945007946 NAD binding site [chemical binding]; other site 397945007947 homodimer interface [polypeptide binding]; other site 397945007948 homotetramer interface [polypeptide binding]; other site 397945007949 active site 397945007950 hypothetical protein; Provisional; Region: PRK06194 397945007951 classical (c) SDRs; Region: SDR_c; cd05233 397945007952 NAD(P) binding site [chemical binding]; other site 397945007953 active site 397945007954 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945007955 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 397945007956 C-terminal domain interface [polypeptide binding]; other site 397945007957 GSH binding site (G-site) [chemical binding]; other site 397945007958 dimer interface [polypeptide binding]; other site 397945007959 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 397945007960 N-terminal domain interface [polypeptide binding]; other site 397945007961 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 397945007962 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 397945007963 Prostaglandin dehydrogenases; Region: PGDH; cd05288 397945007964 NAD(P) binding site [chemical binding]; other site 397945007965 substrate binding site [chemical binding]; other site 397945007966 dimer interface [polypeptide binding]; other site 397945007967 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 397945007968 CoenzymeA binding site [chemical binding]; other site 397945007969 subunit interaction site [polypeptide binding]; other site 397945007970 PHB binding site; other site 397945007971 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 397945007972 classical (c) SDRs; Region: SDR_c; cd05233 397945007973 NAD(P) binding site [chemical binding]; other site 397945007974 active site 397945007975 Winged helix-turn helix; Region: HTH_29; pfam13551 397945007976 Homeodomain-like domain; Region: HTH_32; pfam13565 397945007977 Integrase core domain; Region: rve; pfam00665 397945007978 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945007979 Integrase core domain; Region: rve_3; pfam13683 397945007980 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 397945007981 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945007982 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945007983 active site 397945007984 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 397945007985 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 397945007986 CoenzymeA binding site [chemical binding]; other site 397945007987 subunit interaction site [polypeptide binding]; other site 397945007988 PHB binding site; other site 397945007989 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 397945007990 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 397945007991 dimer interface [polypeptide binding]; other site 397945007992 active site 397945007993 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 397945007994 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 397945007995 substrate binding site [chemical binding]; other site 397945007996 oxyanion hole (OAH) forming residues; other site 397945007997 trimer interface [polypeptide binding]; other site 397945007998 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 397945007999 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945008000 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945008001 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 397945008002 Phage-related minor tail protein [Function unknown]; Region: COG5281 397945008003 tape measure domain; Region: tape_meas_nterm; TIGR02675 397945008004 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 397945008005 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 397945008006 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 397945008007 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 397945008008 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 397945008009 catalytic residue [active] 397945008010 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 397945008011 non-specific DNA binding site [nucleotide binding]; other site 397945008012 salt bridge; other site 397945008013 sequence-specific DNA binding site [nucleotide binding]; other site 397945008014 Integrase core domain; Region: rve; pfam00665 397945008015 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 397945008016 AAA domain; Region: AAA_22; pfam13401 397945008017 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 397945008018 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 397945008019 Imelysin; Region: Peptidase_M75; cl09159 397945008020 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 397945008021 Mor transcription activator family; Region: Mor; cl02360 397945008022 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 397945008023 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 397945008024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008025 metal binding site [ion binding]; metal-binding site 397945008026 active site 397945008027 I-site; other site 397945008028 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 397945008029 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945008030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008031 metal binding site [ion binding]; metal-binding site 397945008032 active site 397945008033 I-site; other site 397945008034 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 397945008035 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; cl15354 397945008036 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 397945008037 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945008038 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945008039 Walker A/P-loop; other site 397945008040 ATP binding site [chemical binding]; other site 397945008041 Q-loop/lid; other site 397945008042 ABC transporter signature motif; other site 397945008043 Walker B; other site 397945008044 D-loop; other site 397945008045 H-loop/switch region; other site 397945008046 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945008047 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945008048 Walker A/P-loop; other site 397945008049 ATP binding site [chemical binding]; other site 397945008050 Q-loop/lid; other site 397945008051 ABC transporter signature motif; other site 397945008052 Walker B; other site 397945008053 D-loop; other site 397945008054 H-loop/switch region; other site 397945008055 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945008056 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 397945008057 TM-ABC transporter signature motif; other site 397945008058 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 397945008059 TM-ABC transporter signature motif; other site 397945008060 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945008061 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 397945008062 putative ligand binding site [chemical binding]; other site 397945008063 Transposase; Region: HTH_Tnp_1; cl17663 397945008064 putative transposase OrfB; Reviewed; Region: PHA02517 397945008065 HTH-like domain; Region: HTH_21; pfam13276 397945008066 Integrase core domain; Region: rve; pfam00665 397945008067 Integrase core domain; Region: rve_3; pfam13683 397945008068 YopJ Serine/Threonine acetyltransferase; Region: YopJ; pfam03421 397945008069 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945008070 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945008071 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945008072 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945008073 hypothetical protein; Provisional; Region: PRK10396 397945008074 yecA family protein; Region: ygfB_yecA; TIGR02292 397945008075 SEC-C motif; Region: SEC-C; pfam02810 397945008076 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 397945008077 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 397945008078 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1569 397945008079 multiple promoter invertase; Provisional; Region: mpi; PRK13413 397945008080 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 397945008081 catalytic residues [active] 397945008082 catalytic nucleophile [active] 397945008083 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945008084 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945008085 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945008086 Synaptic Site I dimer interface [polypeptide binding]; other site 397945008087 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 397945008088 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 397945008089 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 397945008090 dimer interface [polypeptide binding]; other site 397945008091 acyl-activating enzyme (AAE) consensus motif; other site 397945008092 putative active site [active] 397945008093 AMP binding site [chemical binding]; other site 397945008094 putative CoA binding site [chemical binding]; other site 397945008095 Uncharacterized conserved protein [Function unknown]; Region: COG0397 397945008096 hypothetical protein; Validated; Region: PRK00029 397945008097 methionine sulfoxide reductase B; Provisional; Region: PRK00222 397945008098 SelR domain; Region: SelR; pfam01641 397945008099 intracellular septation protein A; Reviewed; Region: PRK00259 397945008100 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 397945008101 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 397945008102 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 397945008103 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 397945008104 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 397945008105 active site 397945008106 catalytic triad [active] 397945008107 oxyanion hole [active] 397945008108 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 397945008109 rRNA binding site [nucleotide binding]; other site 397945008110 predicted 30S ribosome binding site; other site 397945008111 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 397945008112 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 397945008113 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 397945008114 active site 397945008115 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 397945008116 threonine and homoserine efflux system; Provisional; Region: PRK10532 397945008117 N-formylglutamate amidohydrolase; Region: FGase; cl01522 397945008118 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 397945008119 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 397945008120 active site 397945008121 imidazolonepropionase; Validated; Region: PRK09356 397945008122 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 397945008123 active site 397945008124 HutD; Region: HutD; pfam05962 397945008125 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 397945008126 urocanate hydratase; Provisional; Region: PRK05414 397945008127 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 397945008128 active sites [active] 397945008129 tetramer interface [polypeptide binding]; other site 397945008130 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 397945008131 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945008132 DNA-binding site [nucleotide binding]; DNA binding site 397945008133 UTRA domain; Region: UTRA; pfam07702 397945008134 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945008135 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 397945008136 Walker A/P-loop; other site 397945008137 ATP binding site [chemical binding]; other site 397945008138 Q-loop/lid; other site 397945008139 ABC transporter signature motif; other site 397945008140 Walker B; other site 397945008141 D-loop; other site 397945008142 H-loop/switch region; other site 397945008143 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945008144 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 397945008145 dimer interface [polypeptide binding]; other site 397945008146 conserved gate region; other site 397945008147 putative PBP binding loops; other site 397945008148 ABC-ATPase subunit interface; other site 397945008149 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 397945008150 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 397945008151 substrate binding pocket [chemical binding]; other site 397945008152 membrane-bound complex binding site; other site 397945008153 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 397945008154 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 397945008155 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 397945008156 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 397945008157 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 397945008158 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 397945008159 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 397945008160 ATP binding site [chemical binding]; other site 397945008161 Mg2+ binding site [ion binding]; other site 397945008162 G-X-G motif; other site 397945008163 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 397945008164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 397945008165 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 397945008166 dimer interface [polypeptide binding]; other site 397945008167 phosphorylation site [posttranslational modification] 397945008168 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 397945008169 ATP binding site [chemical binding]; other site 397945008170 Mg2+ binding site [ion binding]; other site 397945008171 G-X-G motif; other site 397945008172 Response regulator receiver domain; Region: Response_reg; pfam00072 397945008173 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008174 active site 397945008175 phosphorylation site [posttranslational modification] 397945008176 intermolecular recognition site; other site 397945008177 dimerization interface [polypeptide binding]; other site 397945008178 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945008179 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 397945008180 putative active site [active] 397945008181 heme pocket [chemical binding]; other site 397945008182 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 397945008183 dimer interface [polypeptide binding]; other site 397945008184 phosphorylation site [posttranslational modification] 397945008185 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 397945008186 ATP binding site [chemical binding]; other site 397945008187 Mg2+ binding site [ion binding]; other site 397945008188 G-X-G motif; other site 397945008189 Response regulator receiver domain; Region: Response_reg; pfam00072 397945008190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008191 active site 397945008192 phosphorylation site [posttranslational modification] 397945008193 intermolecular recognition site; other site 397945008194 dimerization interface [polypeptide binding]; other site 397945008195 PAS domain; Region: PAS_9; pfam13426 397945008196 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 397945008197 dimer interface [polypeptide binding]; other site 397945008198 phosphorylation site [posttranslational modification] 397945008199 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 397945008200 ATP binding site [chemical binding]; other site 397945008201 Mg2+ binding site [ion binding]; other site 397945008202 G-X-G motif; other site 397945008203 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945008204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008205 active site 397945008206 phosphorylation site [posttranslational modification] 397945008207 intermolecular recognition site; other site 397945008208 dimerization interface [polypeptide binding]; other site 397945008209 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 397945008210 heme binding pocket [chemical binding]; other site 397945008211 PAS fold; Region: PAS_2; pfam08446 397945008212 GAF domain; Region: GAF; pfam01590 397945008213 Phytochrome region; Region: PHY; pfam00360 397945008214 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945008215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945008216 Integrase core domain; Region: rve; pfam00665 397945008217 Integrase core domain; Region: rve_3; pfam13683 397945008218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945008219 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 397945008220 ATP binding site [chemical binding]; other site 397945008221 Mg2+ binding site [ion binding]; other site 397945008222 G-X-G motif; other site 397945008223 Response regulator receiver domain; Region: Response_reg; pfam00072 397945008224 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008225 active site 397945008226 phosphorylation site [posttranslational modification] 397945008227 intermolecular recognition site; other site 397945008228 dimerization interface [polypeptide binding]; other site 397945008229 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 397945008230 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 397945008231 ligand binding site; other site 397945008232 oligomer interface; other site 397945008233 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 397945008234 dimer interface [polypeptide binding]; other site 397945008235 N-terminal domain interface [polypeptide binding]; other site 397945008236 sulfate 1 binding site; other site 397945008237 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 397945008238 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 397945008239 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 397945008240 active site 397945008241 catalytic site [active] 397945008242 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 397945008243 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 397945008244 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 397945008245 catalytic site [active] 397945008246 active site 397945008247 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 397945008248 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 397945008249 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 397945008250 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 397945008251 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 397945008252 active site 397945008253 catalytic site [active] 397945008254 glycogen synthase; Provisional; Region: glgA; PRK00654 397945008255 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 397945008256 ADP-binding pocket [chemical binding]; other site 397945008257 homodimer interface [polypeptide binding]; other site 397945008258 classical (c) SDRs; Region: SDR_c; cd05233 397945008259 NAD(P) binding site [chemical binding]; other site 397945008260 active site 397945008261 ribonuclease R; Region: RNase_R; TIGR02063 397945008262 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 397945008263 RNB domain; Region: RNB; pfam00773 397945008264 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 397945008265 RNA binding site [nucleotide binding]; other site 397945008266 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 397945008267 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945008268 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945008269 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945008270 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945008271 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 397945008272 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 397945008273 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 397945008274 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945008275 catalytic residue [active] 397945008276 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 397945008277 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 397945008278 dimer interface [polypeptide binding]; other site 397945008279 active site 397945008280 glycine-pyridoxal phosphate binding site [chemical binding]; other site 397945008281 folate binding site [chemical binding]; other site 397945008282 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 397945008283 ATP cone domain; Region: ATP-cone; pfam03477 397945008284 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 397945008285 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 397945008286 Tetramer interface [polypeptide binding]; other site 397945008287 active site 397945008288 FMN-binding site [chemical binding]; other site 397945008289 FOG: CBS domain [General function prediction only]; Region: COG0517 397945008290 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; cl15354 397945008291 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 397945008292 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 397945008293 homodimer interface [polypeptide binding]; other site 397945008294 substrate-cofactor binding pocket; other site 397945008295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008296 catalytic residue [active] 397945008297 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 397945008298 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 397945008299 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 397945008300 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 397945008301 active site 397945008302 motif I; other site 397945008303 motif II; other site 397945008304 ferrochelatase; Reviewed; Region: hemH; PRK00035 397945008305 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 397945008306 C-terminal domain interface [polypeptide binding]; other site 397945008307 active site 397945008308 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 397945008309 active site 397945008310 N-terminal domain interface [polypeptide binding]; other site 397945008311 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945008312 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 397945008313 dimerization interface [polypeptide binding]; other site 397945008314 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 397945008315 dimer interface [polypeptide binding]; other site 397945008316 phosphorylation site [posttranslational modification] 397945008317 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 397945008318 ATP binding site [chemical binding]; other site 397945008319 Mg2+ binding site [ion binding]; other site 397945008320 G-X-G motif; other site 397945008321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945008322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008323 active site 397945008324 phosphorylation site [posttranslational modification] 397945008325 intermolecular recognition site; other site 397945008326 dimerization interface [polypeptide binding]; other site 397945008327 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 397945008328 DNA binding site [nucleotide binding] 397945008329 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]; Region: COG4875 397945008330 SnoaL-like domain; Region: SnoaL_3; pfam13474 397945008331 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 397945008332 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945008333 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 397945008334 N-terminal plug; other site 397945008335 ligand-binding site [chemical binding]; other site 397945008336 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945008337 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 397945008338 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 397945008339 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 397945008340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 397945008341 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945008342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008343 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 397945008344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008345 active site 397945008346 phosphorylation site [posttranslational modification] 397945008347 intermolecular recognition site; other site 397945008348 dimerization interface [polypeptide binding]; other site 397945008349 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 397945008350 DNA binding site [nucleotide binding] 397945008351 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945008352 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 397945008353 dimer interface [polypeptide binding]; other site 397945008354 phosphorylation site [posttranslational modification] 397945008355 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 397945008356 ATP binding site [chemical binding]; other site 397945008357 Mg2+ binding site [ion binding]; other site 397945008358 G-X-G motif; other site 397945008359 Chromate transporter; Region: Chromate_transp; pfam02417 397945008360 Chromate transporter; Region: Chromate_transp; pfam02417 397945008361 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 397945008362 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945008363 active site 397945008364 catalytic tetrad [active] 397945008365 NAD-dependent deacetylase; Provisional; Region: PRK00481 397945008366 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 397945008367 NAD+ binding site [chemical binding]; other site 397945008368 substrate binding site [chemical binding]; other site 397945008369 Zn binding site [ion binding]; other site 397945008370 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 397945008371 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 397945008372 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 397945008373 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 397945008374 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 397945008375 Walker A/P-loop; other site 397945008376 ATP binding site [chemical binding]; other site 397945008377 Q-loop/lid; other site 397945008378 ABC transporter signature motif; other site 397945008379 Walker B; other site 397945008380 D-loop; other site 397945008381 H-loop/switch region; other site 397945008382 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 397945008383 active site 397945008384 catalytic triad [active] 397945008385 oxyanion hole [active] 397945008386 switch loop; other site 397945008387 cystathionine beta-lyase; Provisional; Region: PRK07050 397945008388 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 397945008389 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945008390 catalytic residue [active] 397945008391 BON domain; Region: BON; pfam04972 397945008392 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 397945008393 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 397945008394 Sulfate transporter family; Region: Sulfate_transp; pfam00916 397945008395 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 397945008396 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945008397 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008398 metal binding site [ion binding]; metal-binding site 397945008399 active site 397945008400 I-site; other site 397945008401 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 397945008402 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 397945008403 P-loop; other site 397945008404 rhodanese superfamily protein; Provisional; Region: PRK05320 397945008405 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 397945008406 active site residue [active] 397945008407 Pirin-related protein [General function prediction only]; Region: COG1741 397945008408 Pirin; Region: Pirin; pfam02678 397945008409 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 397945008410 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 397945008411 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945008412 Pirin-related protein [General function prediction only]; Region: COG1741 397945008413 Pirin; Region: Pirin; pfam02678 397945008414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945008415 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 397945008416 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 397945008417 dimerization interface [polypeptide binding]; other site 397945008418 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 397945008419 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945008420 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 397945008421 active site 397945008422 HIGH motif; other site 397945008423 nucleotide binding site [chemical binding]; other site 397945008424 active site 397945008425 KMSKS motif; other site 397945008426 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 397945008427 S-adenosylmethionine binding site [chemical binding]; other site 397945008428 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945008429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008430 metal binding site [ion binding]; metal-binding site 397945008431 active site 397945008432 I-site; other site 397945008433 alanyl-tRNA synthetase; Region: PLN02900 397945008434 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 397945008435 motif 1; other site 397945008436 active site 397945008437 motif 2; other site 397945008438 motif 3; other site 397945008439 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 397945008440 DHHA1 domain; Region: DHHA1; pfam02272 397945008441 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 397945008442 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 397945008443 nucleotide binding site [chemical binding]; other site 397945008444 Cytochrome c; Region: Cytochrom_C; cl11414 397945008445 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 397945008446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945008447 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 397945008448 substrate binding site [chemical binding]; other site 397945008449 dimerization interface [polypeptide binding]; other site 397945008450 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 397945008451 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 397945008452 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 397945008453 Walker A/P-loop; other site 397945008454 ATP binding site [chemical binding]; other site 397945008455 Q-loop/lid; other site 397945008456 ABC transporter signature motif; other site 397945008457 Walker B; other site 397945008458 D-loop; other site 397945008459 H-loop/switch region; other site 397945008460 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945008461 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 397945008462 putative PBP binding loops; other site 397945008463 dimer interface [polypeptide binding]; other site 397945008464 ABC-ATPase subunit interface; other site 397945008465 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_9; cd07245 397945008466 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945008467 dimer interface [polypeptide binding]; other site 397945008468 putative metal binding site [ion binding]; other site 397945008469 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 397945008470 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 397945008471 active site 397945008472 dimer interface [polypeptide binding]; other site 397945008473 non-prolyl cis peptide bond; other site 397945008474 insertion regions; other site 397945008475 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 397945008476 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 397945008477 substrate binding pocket [chemical binding]; other site 397945008478 membrane-bound complex binding site; other site 397945008479 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 397945008480 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945008481 substrate binding pocket [chemical binding]; other site 397945008482 membrane-bound complex binding site; other site 397945008483 oxidative damage protection protein; Provisional; Region: PRK05408 397945008484 Uncharacterized conserved protein [Function unknown]; Region: COG4121 397945008485 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 397945008486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945008487 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 397945008488 putative substrate translocation pore; other site 397945008489 AvrPphF-ORF-2; Region: AvrPphF-ORF-2; pfam09143 397945008490 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 397945008491 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 397945008492 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 397945008493 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 397945008494 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 397945008495 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 397945008496 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 397945008497 Active Sites [active] 397945008498 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 397945008499 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 397945008500 G1 box; other site 397945008501 GTP/Mg2+ binding site [chemical binding]; other site 397945008502 G2 box; other site 397945008503 Switch I region; other site 397945008504 G3 box; other site 397945008505 Switch II region; other site 397945008506 G4 box; other site 397945008507 G5 box; other site 397945008508 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 397945008509 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 397945008510 Ferredoxin [Energy production and conversion]; Region: COG1146 397945008511 4Fe-4S binding domain; Region: Fer4; cl02805 397945008512 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 397945008513 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 397945008514 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945008515 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945008516 phosphopeptide binding site; other site 397945008517 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 397945008518 YcaO-like family; Region: YcaO; pfam02624 397945008519 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 397945008520 Zeta toxin; Region: Zeta_toxin; pfam06414 397945008521 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 397945008522 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 397945008523 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 397945008524 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945008525 active site 397945008526 ATP binding site [chemical binding]; other site 397945008527 substrate binding site [chemical binding]; other site 397945008528 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 397945008529 activation loop (A-loop); other site 397945008530 cyclase homology domain; Region: CHD; cd07302 397945008531 AAA ATPase domain; Region: AAA_16; pfam13191 397945008532 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 397945008533 dimer interface [polypeptide binding]; other site 397945008534 substrate binding site [chemical binding]; other site 397945008535 ATP binding site [chemical binding]; other site 397945008536 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 397945008537 sulfur carrier protein ThiS; Provisional; Region: PRK06944 397945008538 charged pocket; other site 397945008539 hydrophobic patch; other site 397945008540 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 397945008541 ThiS interaction site; other site 397945008542 putative active site [active] 397945008543 tetramer interface [polypeptide binding]; other site 397945008544 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 397945008545 thiamine phosphate binding site [chemical binding]; other site 397945008546 active site 397945008547 pyrophosphate binding site [ion binding]; other site 397945008548 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 397945008549 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 397945008550 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945008551 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945008552 enoyl-CoA hydratase; Provisional; Region: PRK07511 397945008553 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 397945008554 substrate binding site [chemical binding]; other site 397945008555 oxyanion hole (OAH) forming residues; other site 397945008556 trimer interface [polypeptide binding]; other site 397945008557 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945008558 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 397945008559 ligand binding site [chemical binding]; other site 397945008560 flexible hinge region; other site 397945008561 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 397945008562 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 397945008563 putative active site [active] 397945008564 putative substrate binding site [chemical binding]; other site 397945008565 ATP binding site [chemical binding]; other site 397945008566 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945008567 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945008568 active site 397945008569 cyclase homology domain; Region: CHD; cd07302 397945008570 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 397945008571 nucleotidyl binding site; other site 397945008572 metal binding site [ion binding]; metal-binding site 397945008573 dimer interface [polypeptide binding]; other site 397945008574 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945008575 phosphopeptide binding site; other site 397945008576 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 397945008577 dimer interface [polypeptide binding]; other site 397945008578 catalytic triad [active] 397945008579 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 397945008580 nucleoside/Zn binding site; other site 397945008581 dimer interface [polypeptide binding]; other site 397945008582 catalytic motif [active] 397945008583 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945008584 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 397945008585 dimerization interface [polypeptide binding]; other site 397945008586 ligand binding site [chemical binding]; other site 397945008587 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 397945008588 Peptidase family U32; Region: Peptidase_U32; pfam01136 397945008589 Collagenase; Region: DUF3656; pfam12392 397945008590 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 397945008591 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945008592 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945008593 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 397945008594 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 397945008595 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 397945008596 homodimer interface [polypeptide binding]; other site 397945008597 substrate-cofactor binding pocket; other site 397945008598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008599 catalytic residue [active] 397945008600 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 397945008601 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 397945008602 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 397945008603 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 397945008604 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 397945008605 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 397945008606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945008607 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 397945008608 dimer interface [polypeptide binding]; other site 397945008609 phosphorylation site [posttranslational modification] 397945008610 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 397945008611 ATP binding site [chemical binding]; other site 397945008612 Mg2+ binding site [ion binding]; other site 397945008613 G-X-G motif; other site 397945008614 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 397945008615 Protein of unknown function (DUF808); Region: DUF808; pfam05661 397945008616 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 397945008617 GAF domain; Region: GAF; pfam01590 397945008618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008619 metal binding site [ion binding]; metal-binding site 397945008620 I-site; other site 397945008621 active site 397945008622 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 397945008623 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 397945008624 substrate binding site [chemical binding]; other site 397945008625 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 397945008626 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 397945008627 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 397945008628 dimerization interface [polypeptide binding]; other site 397945008629 ATP binding site [chemical binding]; other site 397945008630 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 397945008631 dimerization interface [polypeptide binding]; other site 397945008632 ATP binding site [chemical binding]; other site 397945008633 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 397945008634 putative active site [active] 397945008635 catalytic triad [active] 397945008636 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 397945008637 active site 397945008638 PII uridylyl-transferase; Provisional; Region: PRK03059 397945008639 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 397945008640 metal binding triad; other site 397945008641 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 397945008642 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945008643 Zn2+ binding site [ion binding]; other site 397945008644 Mg2+ binding site [ion binding]; other site 397945008645 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 397945008646 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 397945008647 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 397945008648 active site 397945008649 catalytic residues [active] 397945008650 metal binding site [ion binding]; metal-binding site 397945008651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 397945008652 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 397945008653 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 397945008654 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 397945008655 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 397945008656 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 397945008657 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945008658 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945008659 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 397945008660 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 397945008661 2-isopropylmalate synthase; Validated; Region: PRK00915 397945008662 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 397945008663 active site 397945008664 catalytic residues [active] 397945008665 metal binding site [ion binding]; metal-binding site 397945008666 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 397945008667 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 397945008668 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 397945008669 ketol-acid reductoisomerase; Provisional; Region: PRK05479 397945008670 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 397945008671 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 397945008672 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 397945008673 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 397945008674 putative valine binding site [chemical binding]; other site 397945008675 dimer interface [polypeptide binding]; other site 397945008676 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 397945008677 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 397945008678 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 397945008679 PYR/PP interface [polypeptide binding]; other site 397945008680 dimer interface [polypeptide binding]; other site 397945008681 TPP binding site [chemical binding]; other site 397945008682 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 397945008683 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 397945008684 TPP-binding site [chemical binding]; other site 397945008685 dimer interface [polypeptide binding]; other site 397945008686 RNA polymerase factor sigma-70; Validated; Region: PRK09047 397945008687 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 397945008688 DNA binding residues [nucleotide binding] 397945008689 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 397945008690 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 397945008691 RDD family; Region: RDD; pfam06271 397945008692 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 397945008693 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 397945008694 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 397945008695 Nitrogen regulatory protein P-II; Region: P-II; smart00938 397945008696 NAD synthetase; Provisional; Region: PRK13981 397945008697 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 397945008698 multimer interface [polypeptide binding]; other site 397945008699 active site 397945008700 catalytic triad [active] 397945008701 protein interface 1 [polypeptide binding]; other site 397945008702 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 397945008703 homodimer interface [polypeptide binding]; other site 397945008704 NAD binding pocket [chemical binding]; other site 397945008705 ATP binding pocket [chemical binding]; other site 397945008706 Mg binding site [ion binding]; other site 397945008707 active-site loop [active] 397945008708 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 397945008709 Protein of unknown function, DUF482; Region: DUF482; pfam04339 397945008710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945008711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945008712 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 397945008713 dimerization interface [polypeptide binding]; other site 397945008714 hypothetical protein; Provisional; Region: PRK07079 397945008715 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 397945008716 metal binding site [ion binding]; metal-binding site 397945008717 putative dimer interface [polypeptide binding]; other site 397945008718 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945008719 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 397945008720 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 397945008721 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 397945008722 PAS domain; Region: PAS_9; pfam13426 397945008723 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 397945008724 putative active site [active] 397945008725 heme pocket [chemical binding]; other site 397945008726 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 397945008727 DNA binding residues [nucleotide binding] 397945008728 dimerization interface [polypeptide binding]; other site 397945008729 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 397945008730 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945008731 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 397945008732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 397945008733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 397945008734 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 397945008735 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 397945008736 dimer interface [polypeptide binding]; other site 397945008737 active site 397945008738 heme binding site [chemical binding]; other site 397945008739 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 397945008740 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 397945008741 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 397945008742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945008743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945008744 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 397945008745 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 397945008746 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 397945008747 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 397945008748 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 397945008749 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 397945008750 tetramer interface [polypeptide binding]; other site 397945008751 heme binding pocket [chemical binding]; other site 397945008752 short chain dehydrogenase; Provisional; Region: PRK06949 397945008753 classical (c) SDRs; Region: SDR_c; cd05233 397945008754 NAD(P) binding site [chemical binding]; other site 397945008755 active site 397945008756 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 397945008757 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945008758 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 397945008759 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 397945008760 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 397945008761 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 397945008762 zinc binding site [ion binding]; other site 397945008763 putative ligand binding site [chemical binding]; other site 397945008764 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945008765 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 397945008766 TM-ABC transporter signature motif; other site 397945008767 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 397945008768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945008769 Walker A/P-loop; other site 397945008770 ATP binding site [chemical binding]; other site 397945008771 Q-loop/lid; other site 397945008772 ABC transporter signature motif; other site 397945008773 Walker B; other site 397945008774 D-loop; other site 397945008775 H-loop/switch region; other site 397945008776 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945008777 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 397945008778 putative DNA binding site [nucleotide binding]; other site 397945008779 putative Zn2+ binding site [ion binding]; other site 397945008780 AsnC family; Region: AsnC_trans_reg; pfam01037 397945008781 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 397945008782 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 397945008783 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 397945008784 lipoyl attachment site [posttranslational modification]; other site 397945008785 glycine dehydrogenase; Provisional; Region: PRK05367 397945008786 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 397945008787 tetramer interface [polypeptide binding]; other site 397945008788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008789 catalytic residue [active] 397945008790 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 397945008791 tetramer interface [polypeptide binding]; other site 397945008792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008793 catalytic residue [active] 397945008794 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 397945008795 PAS domain; Region: PAS; smart00091 397945008796 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945008797 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 397945008798 dimer interface [polypeptide binding]; other site 397945008799 phosphorylation site [posttranslational modification] 397945008800 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 397945008801 ATP binding site [chemical binding]; other site 397945008802 Mg2+ binding site [ion binding]; other site 397945008803 G-X-G motif; other site 397945008804 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945008805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945008806 active site 397945008807 phosphorylation site [posttranslational modification] 397945008808 intermolecular recognition site; other site 397945008809 dimerization interface [polypeptide binding]; other site 397945008810 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945008811 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 397945008812 active site 397945008813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008814 short chain dehydrogenase; Provisional; Region: PRK07023 397945008815 NAD(P) binding site [chemical binding]; other site 397945008816 active site 397945008817 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945008818 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 397945008819 Ligand Binding Site [chemical binding]; other site 397945008820 Biofilm formation and stress response factor; Region: BsmA; pfam10014 397945008821 PilZ domain; Region: PilZ; pfam07238 397945008822 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 397945008823 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945008824 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 397945008825 acyl-activating enzyme (AAE) consensus motif; other site 397945008826 putative AMP binding site [chemical binding]; other site 397945008827 putative active site [active] 397945008828 putative CoA binding site [chemical binding]; other site 397945008829 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 397945008830 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 397945008831 dimerization interface [polypeptide binding]; other site 397945008832 NAD binding site [chemical binding]; other site 397945008833 ligand binding site [chemical binding]; other site 397945008834 catalytic site [active] 397945008835 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945008836 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 397945008837 dimerization interface [polypeptide binding]; other site 397945008838 ligand binding site [chemical binding]; other site 397945008839 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 397945008840 multifunctional aminopeptidase A; Provisional; Region: PRK00913 397945008841 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 397945008842 interface (dimer of trimers) [polypeptide binding]; other site 397945008843 Substrate-binding/catalytic site; other site 397945008844 Zn-binding sites [ion binding]; other site 397945008845 Predicted permeases [General function prediction only]; Region: COG0795 397945008846 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 397945008847 Predicted permeases [General function prediction only]; Region: COG0795 397945008848 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 397945008849 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 397945008850 putative active site [active] 397945008851 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 397945008852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945008853 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 397945008854 substrate binding site [chemical binding]; other site 397945008855 dimerization interface [polypeptide binding]; other site 397945008856 methionine aminotransferase; Validated; Region: PRK09082 397945008857 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 397945008858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008859 homodimer interface [polypeptide binding]; other site 397945008860 catalytic residue [active] 397945008861 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 397945008862 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 397945008863 substrate binding pocket [chemical binding]; other site 397945008864 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 397945008865 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 397945008866 homotrimer interaction site [polypeptide binding]; other site 397945008867 putative active site [active] 397945008868 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945008869 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945008870 Walker A/P-loop; other site 397945008871 ATP binding site [chemical binding]; other site 397945008872 Q-loop/lid; other site 397945008873 ABC transporter signature motif; other site 397945008874 Walker B; other site 397945008875 D-loop; other site 397945008876 H-loop/switch region; other site 397945008877 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945008878 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945008879 Walker A/P-loop; other site 397945008880 ATP binding site [chemical binding]; other site 397945008881 Q-loop/lid; other site 397945008882 ABC transporter signature motif; other site 397945008883 Walker B; other site 397945008884 D-loop; other site 397945008885 H-loop/switch region; other site 397945008886 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945008887 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 397945008888 TM-ABC transporter signature motif; other site 397945008889 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 397945008890 TM-ABC transporter signature motif; other site 397945008891 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945008892 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 397945008893 putative ligand binding site [chemical binding]; other site 397945008894 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945008895 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 397945008896 acyl-activating enzyme (AAE) consensus motif; other site 397945008897 AMP binding site [chemical binding]; other site 397945008898 active site 397945008899 CoA binding site [chemical binding]; other site 397945008900 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945008901 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945008902 active site 397945008903 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 397945008904 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 397945008905 substrate binding site [chemical binding]; other site 397945008906 oxyanion hole (OAH) forming residues; other site 397945008907 trimer interface [polypeptide binding]; other site 397945008908 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945008909 MarR family; Region: MarR; pfam01047 397945008910 MarR family; Region: MarR_2; cl17246 397945008911 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 397945008912 classical (c) SDRs; Region: SDR_c; cd05233 397945008913 NAD(P) binding site [chemical binding]; other site 397945008914 active site 397945008915 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 397945008916 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 397945008917 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 397945008918 active site 397945008919 FMN binding site [chemical binding]; other site 397945008920 substrate binding site [chemical binding]; other site 397945008921 homotetramer interface [polypeptide binding]; other site 397945008922 catalytic residue [active] 397945008923 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945008924 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 397945008925 catalytic site [active] 397945008926 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 397945008927 PAS domain; Region: PAS_9; pfam13426 397945008928 putative active site [active] 397945008929 heme pocket [chemical binding]; other site 397945008930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945008931 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 397945008932 dimer interface [polypeptide binding]; other site 397945008933 phosphorylation site [posttranslational modification] 397945008934 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 397945008935 ATP binding site [chemical binding]; other site 397945008936 Mg2+ binding site [ion binding]; other site 397945008937 G-X-G motif; other site 397945008938 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; cl00208 397945008939 CAS motifs; other site 397945008940 active site 397945008941 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 397945008942 AAA domain; Region: AAA_23; pfam13476 397945008943 AAA domain; Region: AAA_21; pfam13304 397945008944 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 397945008945 putative active site [active] 397945008946 putative metal-binding site [ion binding]; other site 397945008947 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945008948 Part of AAA domain; Region: AAA_19; pfam13245 397945008949 Family description; Region: UvrD_C_2; pfam13538 397945008950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945008951 Transposase; Region: HTH_Tnp_1; pfam01527 397945008952 putative transposase OrfB; Reviewed; Region: PHA02517 397945008953 HTH-like domain; Region: HTH_21; pfam13276 397945008954 Integrase core domain; Region: rve; pfam00665 397945008955 Integrase core domain; Region: rve_3; pfam13683 397945008956 ribonuclease G; Provisional; Region: PRK11712 397945008957 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 397945008958 homodimer interface [polypeptide binding]; other site 397945008959 oligonucleotide binding site [chemical binding]; other site 397945008960 Maf-like protein; Region: Maf; pfam02545 397945008961 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 397945008962 active site 397945008963 dimer interface [polypeptide binding]; other site 397945008964 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 397945008965 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 397945008966 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 397945008967 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 397945008968 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 397945008969 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 397945008970 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 397945008971 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 397945008972 hypothetical protein; Validated; Region: PRK00110 397945008973 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 397945008974 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 397945008975 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 397945008976 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 397945008977 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945008978 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945008979 Integrase core domain; Region: rve; pfam00665 397945008980 Integrase core domain; Region: rve_3; pfam13683 397945008981 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945008982 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 397945008983 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945008984 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945008985 FAD binding domain; Region: FAD_binding_4; pfam01565 397945008986 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 397945008987 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 397945008988 tetramer interface [polypeptide binding]; other site 397945008989 active site 397945008990 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945008991 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 397945008992 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 397945008993 active site residue [active] 397945008994 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 397945008995 active site residue [active] 397945008996 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945008997 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 397945008998 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 397945008999 molybdopterin cofactor binding site [chemical binding]; other site 397945009000 substrate binding site [chemical binding]; other site 397945009001 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 397945009002 molybdopterin cofactor binding site; other site 397945009003 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 397945009004 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 397945009005 C-terminal domain interface [polypeptide binding]; other site 397945009006 GSH binding site (G-site) [chemical binding]; other site 397945009007 dimer interface [polypeptide binding]; other site 397945009008 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 397945009009 N-terminal domain interface [polypeptide binding]; other site 397945009010 putative dimer interface [polypeptide binding]; other site 397945009011 active site 397945009012 enoyl-CoA hydratase; Provisional; Region: PRK06142 397945009013 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 397945009014 substrate binding site [chemical binding]; other site 397945009015 oxyanion hole (OAH) forming residues; other site 397945009016 trimer interface [polypeptide binding]; other site 397945009017 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 397945009018 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 397945009019 tetramer interface [polypeptide binding]; other site 397945009020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945009021 catalytic residue [active] 397945009022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945009023 active site 397945009024 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945009025 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 397945009026 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 397945009027 cytosine deaminase; Validated; Region: PRK07572 397945009028 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 397945009029 active site 397945009030 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945009031 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 397945009032 DNA binding site [nucleotide binding] 397945009033 Predicted integral membrane protein [Function unknown]; Region: COG5616 397945009034 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 397945009035 binding surface 397945009036 TPR motif; other site 397945009037 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 397945009038 HSP70 interaction site [polypeptide binding]; other site 397945009039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945009040 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945009041 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945009042 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 397945009043 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945009044 NAD(P) binding site [chemical binding]; other site 397945009045 catalytic residues [active] 397945009046 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 397945009047 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 397945009048 NAD binding site [chemical binding]; other site 397945009049 substrate binding site [chemical binding]; other site 397945009050 catalytic Zn binding site [ion binding]; other site 397945009051 tetramer interface [polypeptide binding]; other site 397945009052 structural Zn binding site [ion binding]; other site 397945009053 Protein of unknown function (DUF779); Region: DUF779; pfam05610 397945009054 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 397945009055 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 397945009056 Walker A motif; other site 397945009057 ATP binding site [chemical binding]; other site 397945009058 Walker B motif; other site 397945009059 arginine finger; other site 397945009060 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 397945009061 NAD-dependent deacetylase; Provisional; Region: PRK05333 397945009062 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 397945009063 exonuclease I; Provisional; Region: sbcB; PRK11779 397945009064 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 397945009065 active site 397945009066 catalytic site [active] 397945009067 substrate binding site [chemical binding]; other site 397945009068 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 397945009069 Transglycosylase SLT domain; Region: SLT_2; pfam13406 397945009070 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 397945009071 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945009072 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 397945009073 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 397945009074 Clp amino terminal domain; Region: Clp_N; pfam02861 397945009075 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 397945009076 Walker A motif; other site 397945009077 ATP binding site [chemical binding]; other site 397945009078 Walker B motif; other site 397945009079 arginine finger; other site 397945009080 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 397945009081 Walker A motif; other site 397945009082 ATP binding site [chemical binding]; other site 397945009083 Walker B motif; other site 397945009084 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 397945009085 Uncharacterized conserved protein [Function unknown]; Region: COG2127 397945009086 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 397945009087 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 397945009088 putative active site [active] 397945009089 putative PHP Thumb interface [polypeptide binding]; other site 397945009090 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 397945009091 generic binding surface II; other site 397945009092 generic binding surface I; other site 397945009093 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 397945009094 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 397945009095 DEAD/DEAH box helicase; Region: DEAD; pfam00270 397945009096 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 397945009097 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 397945009098 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 397945009099 active site 397945009100 Predicted ATPase [General function prediction only]; Region: COG1485 397945009101 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 397945009102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945009103 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 397945009104 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 397945009105 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 397945009106 E3 interaction surface; other site 397945009107 lipoyl attachment site [posttranslational modification]; other site 397945009108 e3 binding domain; Region: E3_binding; pfam02817 397945009109 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 397945009110 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 397945009111 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 397945009112 TPP-binding site [chemical binding]; other site 397945009113 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 397945009114 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 397945009115 Domain of unknown function DUF20; Region: UPF0118; pfam01594 397945009116 PAS fold; Region: PAS_4; pfam08448 397945009117 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 397945009118 putative active site [active] 397945009119 heme pocket [chemical binding]; other site 397945009120 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 397945009121 PAS domain; Region: PAS_9; pfam13426 397945009122 putative active site [active] 397945009123 heme pocket [chemical binding]; other site 397945009124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945009125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945009126 metal binding site [ion binding]; metal-binding site 397945009127 active site 397945009128 I-site; other site 397945009129 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 397945009130 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945009131 Walker A/P-loop; other site 397945009132 ATP binding site [chemical binding]; other site 397945009133 Q-loop/lid; other site 397945009134 ABC transporter signature motif; other site 397945009135 Walker B; other site 397945009136 D-loop; other site 397945009137 H-loop/switch region; other site 397945009138 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945009139 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945009140 Walker A/P-loop; other site 397945009141 ATP binding site [chemical binding]; other site 397945009142 Q-loop/lid; other site 397945009143 ABC transporter signature motif; other site 397945009144 Walker B; other site 397945009145 D-loop; other site 397945009146 H-loop/switch region; other site 397945009147 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945009148 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 397945009149 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 397945009150 dimer interface [polypeptide binding]; other site 397945009151 conserved gate region; other site 397945009152 putative PBP binding loops; other site 397945009153 ABC-ATPase subunit interface; other site 397945009154 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 397945009155 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 397945009156 dimer interface [polypeptide binding]; other site 397945009157 conserved gate region; other site 397945009158 putative PBP binding loops; other site 397945009159 ABC-ATPase subunit interface; other site 397945009160 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 397945009161 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 397945009162 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 397945009163 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 397945009164 NAD binding site [chemical binding]; other site 397945009165 homotetramer interface [polypeptide binding]; other site 397945009166 homodimer interface [polypeptide binding]; other site 397945009167 substrate binding site [chemical binding]; other site 397945009168 active site 397945009169 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 397945009170 Fasciclin domain; Region: Fasciclin; pfam02469 397945009171 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 397945009172 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 397945009173 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 397945009174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945009175 catalytic residue [active] 397945009176 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 397945009177 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 397945009178 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 397945009179 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945009180 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945009181 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945009182 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945009183 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; cl15354 397945009184 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945009185 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 397945009186 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 397945009187 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 397945009188 N-terminal plug; other site 397945009189 ligand-binding site [chemical binding]; other site 397945009190 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945009191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 397945009192 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945009193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945009194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945009195 active site 397945009196 phosphorylation site [posttranslational modification] 397945009197 intermolecular recognition site; other site 397945009198 dimerization interface [polypeptide binding]; other site 397945009199 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 397945009200 DNA binding site [nucleotide binding] 397945009201 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945009202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945009203 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 397945009204 dimer interface [polypeptide binding]; other site 397945009205 phosphorylation site [posttranslational modification] 397945009206 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 397945009207 ATP binding site [chemical binding]; other site 397945009208 Mg2+ binding site [ion binding]; other site 397945009209 G-X-G motif; other site 397945009210 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 397945009211 active site 397945009212 catalytic triad [active] 397945009213 oxyanion hole [active] 397945009214 phosphoglycolate phosphatase; Provisional; Region: PRK13222 397945009215 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 397945009216 motif II; other site 397945009217 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 397945009218 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 397945009219 S-adenosylmethionine binding site [chemical binding]; other site 397945009220 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 397945009221 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945009222 ligand binding site [chemical binding]; other site 397945009223 DNA gyrase subunit A; Validated; Region: PRK05560 397945009224 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 397945009225 CAP-like domain; other site 397945009226 active site 397945009227 primary dimer interface [polypeptide binding]; other site 397945009228 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945009229 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945009230 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945009231 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945009232 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945009233 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945009234 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 397945009235 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945009236 catalytic residue [active] 397945009237 Chorismate mutase type II; Region: CM_2; pfam01817 397945009238 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 397945009239 Prephenate dehydratase; Region: PDT; pfam00800 397945009240 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 397945009241 putative L-Phe binding site [chemical binding]; other site 397945009242 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 397945009243 prephenate dehydrogenase; Validated; Region: PRK08507 397945009244 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 397945009245 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 397945009246 hinge; other site 397945009247 active site 397945009248 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 397945009249 CMP-binding site; other site 397945009250 The sites determining sugar specificity; other site 397945009251 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 397945009252 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 397945009253 RNA binding site [nucleotide binding]; other site 397945009254 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 397945009255 RNA binding site [nucleotide binding]; other site 397945009256 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 397945009257 RNA binding site [nucleotide binding]; other site 397945009258 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 397945009259 RNA binding site [nucleotide binding]; other site 397945009260 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 397945009261 RNA binding site [nucleotide binding]; other site 397945009262 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 397945009263 RNA binding site [nucleotide binding]; other site 397945009264 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 397945009265 IHF dimer interface [polypeptide binding]; other site 397945009266 IHF - DNA interface [nucleotide binding]; other site 397945009267 tetratricopeptide repeat protein; Provisional; Region: PRK11788 397945009268 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 397945009269 binding surface 397945009270 TPR motif; other site 397945009271 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 397945009272 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 397945009273 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 397945009274 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 397945009275 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 397945009276 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 397945009277 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 397945009278 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 397945009279 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 397945009280 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 397945009281 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 397945009282 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 397945009283 5-oxoprolinase; Region: PLN02666 397945009284 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 397945009285 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 397945009286 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 397945009287 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 397945009288 putative active site [active] 397945009289 Zn binding site [ion binding]; other site 397945009290 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945009291 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945009292 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 397945009293 DctM-like transporters; Region: DctM; pfam06808 397945009294 chromosome condensation membrane protein; Provisional; Region: PRK14196 397945009295 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 397945009296 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 397945009297 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945009298 putative substrate translocation pore; other site 397945009299 RmuC family; Region: RmuC; pfam02646 397945009300 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 397945009301 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 397945009302 dimerization interface [polypeptide binding]; other site 397945009303 ligand binding site [chemical binding]; other site 397945009304 NADP binding site [chemical binding]; other site 397945009305 catalytic site [active] 397945009306 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 397945009307 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 397945009308 active site 397945009309 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 397945009310 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945009311 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 397945009312 active site 397945009313 Phasin protein; Region: Phasin_2; pfam09361 397945009314 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 397945009315 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 397945009316 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 397945009317 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 397945009318 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 397945009319 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 397945009320 Hemin uptake protein hemP; Region: hemP; pfam10636 397945009321 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 397945009322 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 397945009323 YccA-like proteins; Region: YccA_like; cd10433 397945009324 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 397945009325 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 397945009326 S-adenosylmethionine binding site [chemical binding]; other site 397945009327 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 397945009328 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 397945009329 putative DNA binding site [nucleotide binding]; other site 397945009330 putative Zn2+ binding site [ion binding]; other site 397945009331 AsnC family; Region: AsnC_trans_reg; pfam01037 397945009332 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 397945009333 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 397945009334 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 397945009335 NAD(P) binding site [chemical binding]; other site 397945009336 catalytic residues [active] 397945009337 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 397945009338 FecCD transport family; Region: FecCD; pfam01032 397945009339 dimer interface [polypeptide binding]; other site 397945009340 putative PBP binding regions; other site 397945009341 ABC-ATPase subunit interface; other site 397945009342 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 397945009343 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 397945009344 putative ligand binding residues [chemical binding]; other site 397945009345 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 397945009346 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 397945009347 Walker A/P-loop; other site 397945009348 ATP binding site [chemical binding]; other site 397945009349 Q-loop/lid; other site 397945009350 ABC transporter signature motif; other site 397945009351 Walker B; other site 397945009352 D-loop; other site 397945009353 H-loop/switch region; other site 397945009354 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945009355 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 397945009356 N-terminal plug; other site 397945009357 ligand-binding site [chemical binding]; other site 397945009358 glutathionine S-transferase; Provisional; Region: PRK10542 397945009359 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 397945009360 C-terminal domain interface [polypeptide binding]; other site 397945009361 GSH binding site (G-site) [chemical binding]; other site 397945009362 dimer interface [polypeptide binding]; other site 397945009363 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945009364 dimer interface [polypeptide binding]; other site 397945009365 N-terminal domain interface [polypeptide binding]; other site 397945009366 substrate binding pocket (H-site) [chemical binding]; other site 397945009367 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945009368 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945009369 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945009370 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 397945009371 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945009372 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 397945009373 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 397945009374 dimer interface [polypeptide binding]; other site 397945009375 ADP-ribose binding site [chemical binding]; other site 397945009376 active site 397945009377 nudix motif; other site 397945009378 metal binding site [ion binding]; metal-binding site 397945009379 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 397945009380 DNA-binding site [nucleotide binding]; DNA binding site 397945009381 RNA-binding motif; other site 397945009382 Predicted transcriptional regulator [Transcription]; Region: COG1959 397945009383 Transcriptional regulator; Region: Rrf2; pfam02082 397945009384 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 397945009385 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 397945009386 hypothetical protein; Provisional; Region: PRK08317 397945009387 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 397945009388 S-adenosylmethionine binding site [chemical binding]; other site 397945009389 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009390 Winged helix-turn helix; Region: HTH_29; pfam13551 397945009391 Homeodomain-like domain; Region: HTH_32; pfam13565 397945009392 Integrase core domain; Region: rve; pfam00665 397945009393 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945009394 Integrase core domain; Region: rve_3; pfam13683 397945009395 RHS protein; Region: RHS; pfam03527 397945009396 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009397 Barstar (barnase inhibitor); Region: Barstar; pfam01337 397945009398 RNAase interaction site [polypeptide binding]; other site 397945009399 PAAR motif; Region: PAAR_motif; pfam05488 397945009400 RHS Repeat; Region: RHS_repeat; pfam05593 397945009401 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945009402 RHS Repeat; Region: RHS_repeat; pfam05593 397945009403 RHS Repeat; Region: RHS_repeat; pfam05593 397945009404 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945009405 RHS Repeat; Region: RHS_repeat; pfam05593 397945009406 RHS protein; Region: RHS; pfam03527 397945009407 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009408 ribonuclease; Region: Ribonuclease; pfam00545 397945009409 active site 397945009410 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 397945009411 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945009412 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945009413 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945009414 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945009415 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945009416 short chain dehydrogenase; Provisional; Region: PRK06523 397945009417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009418 NAD(P) binding site [chemical binding]; other site 397945009419 active site 397945009420 SnoaL-like domain; Region: SnoaL_2; pfam12680 397945009421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945009422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945009423 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 397945009424 putative effector binding pocket; other site 397945009425 putative dimerization interface [polypeptide binding]; other site 397945009426 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945009427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945009428 Integrase core domain; Region: rve; pfam00665 397945009429 Integrase core domain; Region: rve_3; pfam13683 397945009430 putative transposase OrfB; Reviewed; Region: PHA02517 397945009431 HTH-like domain; Region: HTH_21; pfam13276 397945009432 Integrase core domain; Region: rve; pfam00665 397945009433 Integrase core domain; Region: rve_3; pfam13683 397945009434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945009435 Transposase; Region: HTH_Tnp_1; pfam01527 397945009436 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 397945009437 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 397945009438 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 397945009439 ATP binding site [chemical binding]; other site 397945009440 putative Mg++ binding site [ion binding]; other site 397945009441 TIGR02646 family protein; Region: TIGR02646 397945009442 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 397945009443 AAA domain; Region: AAA_21; pfam13304 397945009444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 397945009445 Q-loop/lid; other site 397945009446 ABC transporter signature motif; other site 397945009447 Walker B; other site 397945009448 D-loop; other site 397945009449 H-loop/switch region; other site 397945009450 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 397945009451 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 397945009452 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 397945009453 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 397945009454 HsdM N-terminal domain; Region: HsdM_N; pfam12161 397945009455 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 397945009456 S-adenosylmethionine binding site [chemical binding]; other site 397945009457 Uncharacterized conserved protein [Function unknown]; Region: COG4127 397945009458 Restriction endonuclease; Region: Mrr_cat; pfam04471 397945009459 Predicted transcriptional regulator [Transcription]; Region: COG4190 397945009460 Helix-turn-helix domain; Region: HTH_20; pfam12840 397945009461 putative DNA binding site [nucleotide binding]; other site 397945009462 putative Zn2+ binding site [ion binding]; other site 397945009463 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 397945009464 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 397945009465 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 397945009466 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 397945009467 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 397945009468 active site 397945009469 Int/Topo IB signature motif; other site 397945009470 GMP synthase; Reviewed; Region: guaA; PRK00074 397945009471 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 397945009472 AMP/PPi binding site [chemical binding]; other site 397945009473 candidate oxyanion hole; other site 397945009474 catalytic triad [active] 397945009475 potential glutamine specificity residues [chemical binding]; other site 397945009476 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 397945009477 ATP Binding subdomain [chemical binding]; other site 397945009478 Ligand Binding sites [chemical binding]; other site 397945009479 Dimerization subdomain; other site 397945009480 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 397945009481 putative active site [active] 397945009482 homotetrameric interface [polypeptide binding]; other site 397945009483 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 397945009484 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 397945009485 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 397945009486 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 397945009487 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 397945009488 active site 397945009489 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 397945009490 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 397945009491 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 397945009492 putative coenzyme Q binding site [chemical binding]; other site 397945009493 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 397945009494 SmpB-tmRNA interface; other site 397945009495 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 397945009496 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 397945009497 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 397945009498 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945009499 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 397945009500 DNA binding residues [nucleotide binding] 397945009501 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 397945009502 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 397945009503 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 397945009504 substrate binding site [chemical binding]; other site 397945009505 oxyanion hole (OAH) forming residues; other site 397945009506 trimer interface [polypeptide binding]; other site 397945009507 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 397945009508 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 397945009509 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 397945009510 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 397945009511 Transporter associated domain; Region: CorC_HlyC; smart01091 397945009512 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 397945009513 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 397945009514 G1 box; other site 397945009515 putative GEF interaction site [polypeptide binding]; other site 397945009516 GTP/Mg2+ binding site [chemical binding]; other site 397945009517 Switch I region; other site 397945009518 G2 box; other site 397945009519 G3 box; other site 397945009520 Switch II region; other site 397945009521 G4 box; other site 397945009522 G5 box; other site 397945009523 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 397945009524 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 397945009525 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 397945009526 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 397945009527 RNA binding site [nucleotide binding]; other site 397945009528 active site 397945009529 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 397945009530 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 397945009531 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 397945009532 translation initiation factor IF-2; Region: IF-2; TIGR00487 397945009533 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 397945009534 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 397945009535 G1 box; other site 397945009536 putative GEF interaction site [polypeptide binding]; other site 397945009537 GTP/Mg2+ binding site [chemical binding]; other site 397945009538 Switch I region; other site 397945009539 G2 box; other site 397945009540 G3 box; other site 397945009541 Switch II region; other site 397945009542 G4 box; other site 397945009543 G5 box; other site 397945009544 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 397945009545 Translation-initiation factor 2; Region: IF-2; pfam11987 397945009546 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 397945009547 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 397945009548 NusA N-terminal domain; Region: NusA_N; pfam08529 397945009549 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 397945009550 RNA binding site [nucleotide binding]; other site 397945009551 homodimer interface [polypeptide binding]; other site 397945009552 NusA-like KH domain; Region: KH_5; pfam13184 397945009553 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 397945009554 G-X-X-G motif; other site 397945009555 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 397945009556 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 397945009557 ribosome maturation protein RimP; Reviewed; Region: PRK00092 397945009558 Sm and related proteins; Region: Sm_like; cl00259 397945009559 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 397945009560 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 397945009561 catalytic residues [active] 397945009562 Cytochrome c; Region: Cytochrom_C; pfam00034 397945009563 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 397945009564 Cytochrome c; Region: Cytochrom_C; pfam00034 397945009565 Cytochrome c; Region: Cytochrom_C; cl11414 397945009566 Cytochrome c; Region: Cytochrom_C; cl11414 397945009567 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945009568 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 397945009569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945009570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945009571 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 397945009572 putative dimerization interface [polypeptide binding]; other site 397945009573 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945009574 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945009575 Integrase core domain; Region: rve; pfam00665 397945009576 Integrase core domain; Region: rve_3; pfam13683 397945009577 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 397945009578 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 397945009579 CBD_II domain; Region: CBD_II; smart00637 397945009580 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 397945009581 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 397945009582 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 397945009583 active site 397945009584 substrate binding site [chemical binding]; other site 397945009585 Mg2+ binding site [ion binding]; other site 397945009586 ornithine cyclodeaminase; Validated; Region: PRK07340 397945009587 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 397945009588 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945009589 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 397945009590 dimerization interface [polypeptide binding]; other site 397945009591 ligand binding site [chemical binding]; other site 397945009592 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 397945009593 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 397945009594 putative ATP binding site [chemical binding]; other site 397945009595 putative substrate interface [chemical binding]; other site 397945009596 Rice tungro bacilliform virus P46 protein; Region: RTBV_P46; pfam06216 397945009597 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 397945009598 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 397945009599 binding surface 397945009600 TPR motif; other site 397945009601 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 397945009602 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945009603 ligand binding site [chemical binding]; other site 397945009604 translocation protein TolB; Provisional; Region: tolB; PRK02889 397945009605 TolB amino-terminal domain; Region: TolB_N; pfam04052 397945009606 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009607 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009608 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009609 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009610 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 397945009611 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 397945009612 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 397945009613 Walker A/P-loop; other site 397945009614 ATP binding site [chemical binding]; other site 397945009615 Q-loop/lid; other site 397945009616 ABC transporter signature motif; other site 397945009617 Walker B; other site 397945009618 D-loop; other site 397945009619 H-loop/switch region; other site 397945009620 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 397945009621 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 397945009622 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 397945009623 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 397945009624 active site 397945009625 PilZ domain; Region: PilZ; cl01260 397945009626 DNA polymerase III subunit delta'; Validated; Region: PRK06964 397945009627 DNA polymerase III subunit delta'; Validated; Region: PRK08485 397945009628 thymidylate kinase; Validated; Region: tmk; PRK00698 397945009629 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 397945009630 TMP-binding site; other site 397945009631 ATP-binding site [chemical binding]; other site 397945009632 YceG-like family; Region: YceG; pfam02618 397945009633 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 397945009634 dimerization interface [polypeptide binding]; other site 397945009635 putative global regulator; Reviewed; Region: PRK09559 397945009636 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 397945009637 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 397945009638 active site 397945009639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945009640 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 397945009641 Coenzyme A binding pocket [chemical binding]; other site 397945009642 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 397945009643 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 397945009644 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945009645 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 397945009646 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 397945009647 putative active site [active] 397945009648 metal binding site [ion binding]; metal-binding site 397945009649 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945009650 HDOD domain; Region: HDOD; pfam08668 397945009651 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 397945009652 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 397945009653 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 397945009654 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 397945009655 RNA binding site [nucleotide binding]; other site 397945009656 Thrombospondin N-terminal -like domains; Region: TSPN; smart00210 397945009657 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945009658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945009659 Integrase core domain; Region: rve; pfam00665 397945009660 Integrase core domain; Region: rve_3; pfam13683 397945009661 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 397945009662 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 397945009663 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 397945009664 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 397945009665 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 397945009666 thioredoxin reductase; Provisional; Region: PRK10262 397945009667 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945009668 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945009669 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 397945009670 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 397945009671 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 397945009672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945009673 DNA-binding site [nucleotide binding]; DNA binding site 397945009674 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 397945009675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945009676 homodimer interface [polypeptide binding]; other site 397945009677 catalytic residue [active] 397945009678 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 397945009679 Fatty acid desaturase; Region: FA_desaturase; pfam00487 397945009680 Di-iron ligands [ion binding]; other site 397945009681 Transposase; Region: DDE_Tnp_ISL3; pfam01610 397945009682 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 397945009683 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 397945009684 S-adenosylmethionine binding site [chemical binding]; other site 397945009685 Amb_all domain; Region: Amb_all; smart00656 397945009686 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 397945009687 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 397945009688 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 397945009689 active site 397945009690 substrate binding site [chemical binding]; other site 397945009691 cosubstrate binding site; other site 397945009692 catalytic site [active] 397945009693 Protein of unknown function, DUF480; Region: DUF480; pfam04337 397945009694 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 397945009695 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945009696 active site 397945009697 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 397945009698 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 397945009699 active site 397945009700 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 397945009701 Glyco_18 domain; Region: Glyco_18; smart00636 397945009702 active site 397945009703 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 397945009704 TPR motif; other site 397945009705 binding surface 397945009706 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 397945009707 binding surface 397945009708 TPR motif; other site 397945009709 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 397945009710 Methyltransferase domain; Region: Methyltransf_12; pfam08242 397945009711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945009712 dimer interface [polypeptide binding]; other site 397945009713 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 397945009714 putative CheW interface [polypeptide binding]; other site 397945009715 DctM-like transporters; Region: DctM; pfam06808 397945009716 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 397945009717 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 397945009718 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945009719 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 397945009720 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 397945009721 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 397945009722 active site 397945009723 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 397945009724 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 397945009725 active site 397945009726 Riboflavin kinase; Region: Flavokinase; smart00904 397945009727 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 397945009728 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945009729 active site 397945009730 HIGH motif; other site 397945009731 nucleotide binding site [chemical binding]; other site 397945009732 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 397945009733 active site 397945009734 KMSKS motif; other site 397945009735 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 397945009736 tRNA binding surface [nucleotide binding]; other site 397945009737 anticodon binding site; other site 397945009738 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 397945009739 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 397945009740 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945009741 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945009742 DNA binding site [nucleotide binding] 397945009743 domain linker motif; other site 397945009744 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 397945009745 putative dimerization interface [polypeptide binding]; other site 397945009746 putative ligand binding site [chemical binding]; other site 397945009747 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 397945009748 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 397945009749 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 397945009750 dimer interface [polypeptide binding]; other site 397945009751 conserved gate region; other site 397945009752 ABC-ATPase subunit interface; other site 397945009753 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 397945009754 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 397945009755 dimer interface [polypeptide binding]; other site 397945009756 conserved gate region; other site 397945009757 putative PBP binding loops; other site 397945009758 ABC-ATPase subunit interface; other site 397945009759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945009760 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 397945009761 Walker A/P-loop; other site 397945009762 ATP binding site [chemical binding]; other site 397945009763 Q-loop/lid; other site 397945009764 ABC transporter signature motif; other site 397945009765 Walker B; other site 397945009766 D-loop; other site 397945009767 H-loop/switch region; other site 397945009768 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 397945009769 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945009770 active site 397945009771 metal binding site [ion binding]; metal-binding site 397945009772 hexamer interface [polypeptide binding]; other site 397945009773 Transposase domain (DUF772); Region: DUF772; pfam05598 397945009774 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 397945009775 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 397945009776 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 397945009777 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 397945009778 PhoU domain; Region: PhoU; pfam01895 397945009779 PhoU domain; Region: PhoU; pfam01895 397945009780 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945009781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945009782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945009783 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 397945009784 dimerization interface [polypeptide binding]; other site 397945009785 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 397945009786 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 397945009787 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 397945009788 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 397945009789 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 397945009790 nudix motif; other site 397945009791 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 397945009792 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 397945009793 NADP binding site [chemical binding]; other site 397945009794 dimer interface [polypeptide binding]; other site 397945009795 EamA-like transporter family; Region: EamA; pfam00892 397945009796 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 397945009797 EamA-like transporter family; Region: EamA; pfam00892 397945009798 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 397945009799 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945009800 RHS protein; Region: RHS; pfam03527 397945009801 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009802 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 397945009803 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 397945009804 RHS Repeat; Region: RHS_repeat; pfam05593 397945009805 RHS Repeat; Region: RHS_repeat; pfam05593 397945009806 RHS Repeat; Region: RHS_repeat; pfam05593 397945009807 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945009808 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945009809 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945009810 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945009811 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945009812 RHS protein; Region: RHS; pfam03527 397945009813 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009814 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 397945009815 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 397945009816 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945009817 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945009818 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945009819 PAS fold; Region: PAS_7; pfam12860 397945009820 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 397945009821 putative active site [active] 397945009822 heme pocket [chemical binding]; other site 397945009823 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945009824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945009825 metal binding site [ion binding]; metal-binding site 397945009826 active site 397945009827 I-site; other site 397945009828 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 397945009829 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945009830 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945009831 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 397945009832 putative active site [active] 397945009833 putative metal binding site [ion binding]; other site 397945009834 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 397945009835 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 397945009836 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 397945009837 active site 397945009838 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 397945009839 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 397945009840 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 397945009841 putative substrate translocation pore; other site 397945009842 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945009843 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 397945009844 motif II; other site 397945009845 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 397945009846 DNA-binding site [nucleotide binding]; DNA binding site 397945009847 RNA-binding motif; other site 397945009848 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 397945009849 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 397945009850 cyclase homology domain; Region: CHD; cd07302 397945009851 nucleotidyl binding site; other site 397945009852 metal binding site [ion binding]; metal-binding site 397945009853 dimer interface [polypeptide binding]; other site 397945009854 PilZ domain; Region: PilZ; pfam07238 397945009855 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 397945009856 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945009857 Walker A/P-loop; other site 397945009858 ATP binding site [chemical binding]; other site 397945009859 Q-loop/lid; other site 397945009860 ABC transporter signature motif; other site 397945009861 Walker B; other site 397945009862 D-loop; other site 397945009863 H-loop/switch region; other site 397945009864 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 397945009865 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945009866 Walker A/P-loop; other site 397945009867 ATP binding site [chemical binding]; other site 397945009868 Q-loop/lid; other site 397945009869 ABC transporter signature motif; other site 397945009870 Walker B; other site 397945009871 D-loop; other site 397945009872 H-loop/switch region; other site 397945009873 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945009874 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 397945009875 TM-ABC transporter signature motif; other site 397945009876 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 397945009877 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945009878 TM-ABC transporter signature motif; other site 397945009879 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945009880 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 397945009881 putative ligand binding site [chemical binding]; other site 397945009882 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 397945009883 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 397945009884 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 397945009885 Uncharacterized conserved protein [Function unknown]; Region: COG2353 397945009886 YceI-like domain; Region: YceI; smart00867 397945009887 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 397945009888 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 397945009889 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945009890 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 397945009891 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 397945009892 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 397945009893 carboxyltransferase (CT) interaction site; other site 397945009894 biotinylation site [posttranslational modification]; other site 397945009895 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 397945009896 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 397945009897 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 397945009898 hypothetical protein; Provisional; Region: PRK05463 397945009899 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 397945009900 putative active site [active] 397945009901 benzoate transport; Region: 2A0115; TIGR00895 397945009902 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 397945009903 putative substrate translocation pore; other site 397945009904 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945009905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945009906 DNA-binding site [nucleotide binding]; DNA binding site 397945009907 FCD domain; Region: FCD; pfam07729 397945009908 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 397945009909 hypothetical protein; Provisional; Region: PRK07236 397945009910 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 397945009911 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945009912 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 397945009913 dimer interface [polypeptide binding]; other site 397945009914 phosphorylation site [posttranslational modification] 397945009915 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 397945009916 ATP binding site [chemical binding]; other site 397945009917 Mg2+ binding site [ion binding]; other site 397945009918 G-X-G motif; other site 397945009919 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 397945009920 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 397945009921 phosphate binding site [ion binding]; other site 397945009922 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 397945009923 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 397945009924 CHASE4 domain; Region: CHASE4; pfam05228 397945009925 PAS domain S-box; Region: sensory_box; TIGR00229 397945009926 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 397945009927 putative active site [active] 397945009928 heme pocket [chemical binding]; other site 397945009929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945009930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945009931 metal binding site [ion binding]; metal-binding site 397945009932 active site 397945009933 I-site; other site 397945009934 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 397945009935 Response regulator receiver domain; Region: Response_reg; pfam00072 397945009936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945009937 active site 397945009938 phosphorylation site [posttranslational modification] 397945009939 intermolecular recognition site; other site 397945009940 dimerization interface [polypeptide binding]; other site 397945009941 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 397945009942 DNA binding residues [nucleotide binding] 397945009943 dimerization interface [polypeptide binding]; other site 397945009944 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 397945009945 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 397945009946 dimer interface [polypeptide binding]; other site 397945009947 phosphorylation site [posttranslational modification] 397945009948 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 397945009949 ATP binding site [chemical binding]; other site 397945009950 Mg2+ binding site [ion binding]; other site 397945009951 G-X-G motif; other site 397945009952 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945009953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945009954 active site 397945009955 phosphorylation site [posttranslational modification] 397945009956 intermolecular recognition site; other site 397945009957 dimerization interface [polypeptide binding]; other site 397945009958 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 397945009959 alpha-gamma subunit interface [polypeptide binding]; other site 397945009960 beta-gamma subunit interface [polypeptide binding]; other site 397945009961 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 397945009962 gamma-beta subunit interface [polypeptide binding]; other site 397945009963 alpha-beta subunit interface [polypeptide binding]; other site 397945009964 urease subunit alpha; Reviewed; Region: ureC; PRK13207 397945009965 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 397945009966 subunit interactions [polypeptide binding]; other site 397945009967 active site 397945009968 flap region; other site 397945009969 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 397945009970 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 397945009971 dimer interface [polypeptide binding]; other site 397945009972 catalytic residues [active] 397945009973 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 397945009974 UreF; Region: UreF; pfam01730 397945009975 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 397945009976 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 397945009977 active site 397945009978 catalytic triad [active] 397945009979 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 397945009980 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 397945009981 Walker A motif; other site 397945009982 ATP binding site [chemical binding]; other site 397945009983 Walker B motif; other site 397945009984 arginine finger; other site 397945009985 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945009986 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945009987 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 397945009988 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 397945009989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945009990 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 397945009991 dimer interface [polypeptide binding]; other site 397945009992 phosphorylation site [posttranslational modification] 397945009993 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 397945009994 ATP binding site [chemical binding]; other site 397945009995 Mg2+ binding site [ion binding]; other site 397945009996 G-X-G motif; other site 397945009997 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 397945009998 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 397945009999 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945010000 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 397945010001 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 397945010002 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 397945010003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945010004 active site 397945010005 phosphorylation site [posttranslational modification] 397945010006 intermolecular recognition site; other site 397945010007 dimerization interface [polypeptide binding]; other site 397945010008 CheB methylesterase; Region: CheB_methylest; pfam01339 397945010009 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 397945010010 Type II transport protein GspH; Region: GspH; pfam12019 397945010011 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 397945010012 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 397945010013 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 397945010014 PilX N-terminal; Region: PilX_N; pfam14341 397945010015 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 397945010016 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 397945010017 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 397945010018 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 397945010019 catalytic motif [active] 397945010020 Zn binding site [ion binding]; other site 397945010021 RibD C-terminal domain; Region: RibD_C; cl17279 397945010022 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 397945010023 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 397945010024 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 397945010025 Subunit I/III interface [polypeptide binding]; other site 397945010026 D-pathway; other site 397945010027 Subunit I/VIIc interface [polypeptide binding]; other site 397945010028 Subunit I/IV interface [polypeptide binding]; other site 397945010029 Subunit I/II interface [polypeptide binding]; other site 397945010030 Low-spin heme (heme a) binding site [chemical binding]; other site 397945010031 Subunit I/VIIa interface [polypeptide binding]; other site 397945010032 Subunit I/VIa interface [polypeptide binding]; other site 397945010033 Dimer interface; other site 397945010034 Putative water exit pathway; other site 397945010035 Binuclear center (heme a3/CuB) [ion binding]; other site 397945010036 K-pathway; other site 397945010037 Subunit I/Vb interface [polypeptide binding]; other site 397945010038 Putative proton exit pathway; other site 397945010039 Subunit I/VIb interface; other site 397945010040 Subunit I/VIc interface [polypeptide binding]; other site 397945010041 Electron transfer pathway; other site 397945010042 Subunit I/VIIIb interface [polypeptide binding]; other site 397945010043 Subunit I/VIIb interface [polypeptide binding]; other site 397945010044 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 397945010045 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 397945010046 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 397945010047 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 397945010048 catalytic triad [active] 397945010049 Isochorismatase family; Region: Isochorismatase; pfam00857 397945010050 conserved cis-peptide bond; other site 397945010051 Predicted membrane protein [Function unknown]; Region: COG2323 397945010052 histidine kinase; Provisional; Region: PRK13557 397945010053 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 397945010054 putative active site [active] 397945010055 heme pocket [chemical binding]; other site 397945010056 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 397945010057 dimer interface [polypeptide binding]; other site 397945010058 phosphorylation site [posttranslational modification] 397945010059 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 397945010060 ATP binding site [chemical binding]; other site 397945010061 Mg2+ binding site [ion binding]; other site 397945010062 G-X-G motif; other site 397945010063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945010064 active site 397945010065 phosphorylation site [posttranslational modification] 397945010066 intermolecular recognition site; other site 397945010067 dimerization interface [polypeptide binding]; other site 397945010068 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 397945010069 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 397945010070 S-adenosylmethionine binding site [chemical binding]; other site 397945010071 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 397945010072 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 397945010073 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 397945010074 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 397945010075 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 397945010076 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945010077 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 397945010078 DNA binding residues [nucleotide binding] 397945010079 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 397945010080 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945010081 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 397945010082 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 397945010083 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 397945010084 S-adenosylmethionine binding site [chemical binding]; other site 397945010085 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 397945010086 classical (c) SDRs; Region: SDR_c; cd05233 397945010087 NAD(P) binding site [chemical binding]; other site 397945010088 active site 397945010089 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 397945010090 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 397945010091 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 397945010092 FeS/SAM binding site; other site 397945010093 HemN C-terminal domain; Region: HemN_C; pfam06969 397945010094 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 397945010095 active site 397945010096 dimerization interface [polypeptide binding]; other site 397945010097 ribonuclease PH; Reviewed; Region: rph; PRK00173 397945010098 Ribonuclease PH; Region: RNase_PH_bact; cd11362 397945010099 hexamer interface [polypeptide binding]; other site 397945010100 active site 397945010101 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 397945010102 Protein phosphatase 2C; Region: PP2C; pfam00481 397945010103 active site 397945010104 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945010105 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945010106 active site 397945010107 ATP binding site [chemical binding]; other site 397945010108 substrate binding site [chemical binding]; other site 397945010109 activation loop (A-loop); other site 397945010110 hypothetical protein; Provisional; Region: PRK11820 397945010111 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 397945010112 MraW methylase family; Region: Methyltransf_5; cl17771 397945010113 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 397945010114 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 397945010115 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 397945010116 catalytic site [active] 397945010117 G-X2-G-X-G-K; other site 397945010118 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 397945010119 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 397945010120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945010121 Zn2+ binding site [ion binding]; other site 397945010122 Mg2+ binding site [ion binding]; other site 397945010123 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 397945010124 synthetase active site [active] 397945010125 NTP binding site [chemical binding]; other site 397945010126 metal binding site [ion binding]; metal-binding site 397945010127 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 397945010128 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 397945010129 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 397945010130 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 397945010131 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945010132 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945010133 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 397945010134 Catalytic site [active] 397945010135 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 397945010136 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945010137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945010138 active site 397945010139 phosphorylation site [posttranslational modification] 397945010140 intermolecular recognition site; other site 397945010141 dimerization interface [polypeptide binding]; other site 397945010142 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 397945010143 DNA binding residues [nucleotide binding] 397945010144 dimerization interface [polypeptide binding]; other site 397945010145 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 397945010146 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 397945010147 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 397945010148 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 397945010149 catalytic residues [active] 397945010150 catalytic nucleophile [active] 397945010151 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945010152 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945010153 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945010154 Synaptic Site I dimer interface [polypeptide binding]; other site 397945010155 DNA binding site [nucleotide binding] 397945010156 Zonular occludens toxin (Zot); Region: Zot; cl17485 397945010157 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 397945010158 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 397945010159 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 397945010160 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 397945010161 Walker A/P-loop; other site 397945010162 ATP binding site [chemical binding]; other site 397945010163 Q-loop/lid; other site 397945010164 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 397945010165 ABC transporter signature motif; other site 397945010166 Walker B; other site 397945010167 D-loop; other site 397945010168 H-loop/switch region; other site 397945010169 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 397945010170 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 397945010171 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945010172 minor groove reading motif; other site 397945010173 helix-hairpin-helix signature motif; other site 397945010174 substrate binding pocket [chemical binding]; other site 397945010175 active site 397945010176 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 397945010177 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 397945010178 DNA binding and oxoG recognition site [nucleotide binding] 397945010179 Dynamin family; Region: Dynamin_N; pfam00350 397945010180 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 397945010181 G1 box; other site 397945010182 GTP/Mg2+ binding site [chemical binding]; other site 397945010183 G2 box; other site 397945010184 Switch I region; other site 397945010185 G3 box; other site 397945010186 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 397945010187 G3 box; other site 397945010188 Switch II region; other site 397945010189 GTP/Mg2+ binding site [chemical binding]; other site 397945010190 G4 box; other site 397945010191 G5 box; other site 397945010192 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 397945010193 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 397945010194 DNA binding site [nucleotide binding] 397945010195 catalytic residue [active] 397945010196 H2TH interface [polypeptide binding]; other site 397945010197 putative catalytic residues [active] 397945010198 turnover-facilitating residue; other site 397945010199 intercalation triad [nucleotide binding]; other site 397945010200 8OG recognition residue [nucleotide binding]; other site 397945010201 putative reading head residues; other site 397945010202 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 397945010203 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 397945010204 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 397945010205 binding surface 397945010206 TPR motif; other site 397945010207 TPR repeat; Region: TPR_11; pfam13414 397945010208 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 397945010209 binding surface 397945010210 TPR motif; other site 397945010211 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 397945010212 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 397945010213 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 397945010214 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 397945010215 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 397945010216 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 397945010217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945010218 active site 397945010219 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 397945010220 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 397945010221 5S rRNA interface [nucleotide binding]; other site 397945010222 CTC domain interface [polypeptide binding]; other site 397945010223 L16 interface [polypeptide binding]; other site 397945010224 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 397945010225 putative active site [active] 397945010226 catalytic residue [active] 397945010227 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 397945010228 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945010229 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 397945010230 dimer interface [polypeptide binding]; other site 397945010231 conserved gate region; other site 397945010232 putative PBP binding loops; other site 397945010233 ABC-ATPase subunit interface; other site 397945010234 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 397945010235 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 397945010236 dimer interface [polypeptide binding]; other site 397945010237 conserved gate region; other site 397945010238 putative PBP binding loops; other site 397945010239 ABC-ATPase subunit interface; other site 397945010240 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 397945010241 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945010242 Walker A/P-loop; other site 397945010243 ATP binding site [chemical binding]; other site 397945010244 Q-loop/lid; other site 397945010245 ABC transporter signature motif; other site 397945010246 Walker B; other site 397945010247 D-loop; other site 397945010248 H-loop/switch region; other site 397945010249 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945010250 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 397945010251 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 397945010252 Walker A/P-loop; other site 397945010253 ATP binding site [chemical binding]; other site 397945010254 Q-loop/lid; other site 397945010255 ABC transporter signature motif; other site 397945010256 Walker B; other site 397945010257 D-loop; other site 397945010258 H-loop/switch region; other site 397945010259 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945010260 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 397945010261 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_6; cd08494 397945010262 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 397945010263 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 397945010264 active site 397945010265 tetramer interface [polypeptide binding]; other site 397945010266 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945010267 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945010268 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945010269 DNA binding site [nucleotide binding] 397945010270 domain linker motif; other site 397945010271 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 397945010272 putative dimerization interface [polypeptide binding]; other site 397945010273 putative ligand binding site [chemical binding]; other site 397945010274 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 397945010275 active site 397945010276 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 397945010277 Sensors of blue-light using FAD; Region: BLUF; smart01034 397945010278 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 397945010279 active site 397945010280 PLD-like domain; Region: PLDc_2; pfam13091 397945010281 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 397945010282 putative active site [active] 397945010283 catalytic site [active] 397945010284 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945010285 PLD-like domain; Region: PLDc_2; pfam13091 397945010286 putative active site [active] 397945010287 catalytic site [active] 397945010288 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 397945010289 putative catalytic site [active] 397945010290 putative metal binding site [ion binding]; other site 397945010291 putative phosphate binding site [ion binding]; other site 397945010292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945010293 Response regulator receiver domain; Region: Response_reg; pfam00072 397945010294 active site 397945010295 phosphorylation site [posttranslational modification] 397945010296 intermolecular recognition site; other site 397945010297 dimerization interface [polypeptide binding]; other site 397945010298 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 397945010299 binding surface 397945010300 TPR motif; other site 397945010301 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 397945010302 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 397945010303 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 397945010304 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 397945010305 dimer interface [polypeptide binding]; other site 397945010306 anticodon binding site; other site 397945010307 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 397945010308 homodimer interface [polypeptide binding]; other site 397945010309 motif 1; other site 397945010310 active site 397945010311 motif 2; other site 397945010312 GAD domain; Region: GAD; pfam02938 397945010313 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 397945010314 motif 3; other site 397945010315 Uncharacterized conserved protein [Function unknown]; Region: COG2928 397945010316 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 397945010317 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 397945010318 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 397945010319 SCP-2 sterol transfer family; Region: SCP2; pfam02036 397945010320 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 397945010321 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 397945010322 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 397945010323 S-adenosylmethionine binding site [chemical binding]; other site 397945010324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 397945010325 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945010326 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945010327 metal binding site [ion binding]; metal-binding site 397945010328 active site 397945010329 I-site; other site 397945010330 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 397945010331 HIT family signature motif; other site 397945010332 catalytic residue [active] 397945010333 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 397945010334 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945010335 FAD binding domain; Region: FAD_binding_4; pfam01565 397945010336 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945010337 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 397945010338 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 397945010339 Cysteine-rich domain; Region: CCG; pfam02754 397945010340 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 397945010341 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 397945010342 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 397945010343 ligand binding site [chemical binding]; other site 397945010344 NAD binding site [chemical binding]; other site 397945010345 tetramer interface [polypeptide binding]; other site 397945010346 catalytic site [active] 397945010347 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 397945010348 L-serine binding site [chemical binding]; other site 397945010349 ACT domain interface; other site 397945010350 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 397945010351 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945010352 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 397945010353 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 397945010354 dimer interface [polypeptide binding]; other site 397945010355 conserved gate region; other site 397945010356 putative PBP binding loops; other site 397945010357 ABC-ATPase subunit interface; other site 397945010358 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 397945010359 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 397945010360 dimer interface [polypeptide binding]; other site 397945010361 conserved gate region; other site 397945010362 putative PBP binding loops; other site 397945010363 ABC-ATPase subunit interface; other site 397945010364 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 397945010365 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 397945010366 Walker A/P-loop; other site 397945010367 ATP binding site [chemical binding]; other site 397945010368 Q-loop/lid; other site 397945010369 ABC transporter signature motif; other site 397945010370 Walker B; other site 397945010371 D-loop; other site 397945010372 H-loop/switch region; other site 397945010373 TOBE domain; Region: TOBE_2; pfam08402 397945010374 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 397945010375 dimer interface [polypeptide binding]; other site 397945010376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945010377 ligand binding site [chemical binding]; other site 397945010378 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 397945010379 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 397945010380 putative active site [active] 397945010381 catalytic site [active] 397945010382 putative metal binding site [ion binding]; other site 397945010383 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 397945010384 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 397945010385 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945010386 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945010387 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945010388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945010389 Integrase core domain; Region: rve; pfam00665 397945010390 Integrase core domain; Region: rve_3; pfam13683 397945010391 Winged helix-turn helix; Region: HTH_29; pfam13551 397945010392 Homeodomain-like domain; Region: HTH_32; pfam13565 397945010393 Integrase core domain; Region: rve; pfam00665 397945010394 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010395 Integrase core domain; Region: rve_3; pfam13683 397945010396 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 397945010397 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 397945010398 tRNA; other site 397945010399 putative tRNA binding site [nucleotide binding]; other site 397945010400 putative NADP binding site [chemical binding]; other site 397945010401 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 397945010402 peptide chain release factor 1; Validated; Region: prfA; PRK00591 397945010403 This domain is found in peptide chain release factors; Region: PCRF; smart00937 397945010404 RF-1 domain; Region: RF-1; pfam00472 397945010405 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 397945010406 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 397945010407 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 397945010408 Walker A motif; other site 397945010409 ATP binding site [chemical binding]; other site 397945010410 Walker B motif; other site 397945010411 arginine finger; other site 397945010412 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 397945010413 Domain of unknown function DUF21; Region: DUF21; pfam01595 397945010414 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 397945010415 Transporter associated domain; Region: CorC_HlyC; smart01091 397945010416 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 397945010417 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 397945010418 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945010419 catalytic residue [active] 397945010420 prolyl-tRNA synthetase; Provisional; Region: PRK09194 397945010421 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 397945010422 dimer interface [polypeptide binding]; other site 397945010423 motif 1; other site 397945010424 active site 397945010425 motif 2; other site 397945010426 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 397945010427 putative deacylase active site [active] 397945010428 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 397945010429 active site 397945010430 motif 3; other site 397945010431 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 397945010432 anticodon binding site; other site 397945010433 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 397945010434 putative active site [active] 397945010435 Ap4A binding site [chemical binding]; other site 397945010436 nudix motif; other site 397945010437 putative metal binding site [ion binding]; other site 397945010438 gamma-glutamyl kinase; Provisional; Region: PRK05429 397945010439 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 397945010440 nucleotide binding site [chemical binding]; other site 397945010441 homotetrameric interface [polypeptide binding]; other site 397945010442 putative phosphate binding site [ion binding]; other site 397945010443 putative allosteric binding site; other site 397945010444 PUA domain; Region: PUA; pfam01472 397945010445 GTPase CgtA; Reviewed; Region: obgE; PRK12299 397945010446 GTP1/OBG; Region: GTP1_OBG; pfam01018 397945010447 Obg GTPase; Region: Obg; cd01898 397945010448 G1 box; other site 397945010449 GTP/Mg2+ binding site [chemical binding]; other site 397945010450 Switch I region; other site 397945010451 G2 box; other site 397945010452 G3 box; other site 397945010453 Switch II region; other site 397945010454 G4 box; other site 397945010455 G5 box; other site 397945010456 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 397945010457 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 397945010458 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 397945010459 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 397945010460 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 397945010461 substrate binding pocket [chemical binding]; other site 397945010462 chain length determination region; other site 397945010463 substrate-Mg2+ binding site; other site 397945010464 catalytic residues [active] 397945010465 aspartate-rich region 1; other site 397945010466 active site lid residues [active] 397945010467 aspartate-rich region 2; other site 397945010468 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945010469 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945010470 metal binding site [ion binding]; metal-binding site 397945010471 putative dimer interface [polypeptide binding]; other site 397945010472 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945010473 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945010474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945010475 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945010476 dimerization interface [polypeptide binding]; other site 397945010477 substrate binding pocket [chemical binding]; other site 397945010478 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 397945010479 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 397945010480 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945010481 Walker A motif; other site 397945010482 ATP binding site [chemical binding]; other site 397945010483 Walker B motif; other site 397945010484 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 397945010485 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945010486 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945010487 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 397945010488 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 397945010489 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 397945010490 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 397945010491 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 397945010492 CoA-binding site [chemical binding]; other site 397945010493 ATP-binding [chemical binding]; other site 397945010494 hypothetical protein; Provisional; Region: PRK05287 397945010495 Domain of unknown function (DUF329); Region: DUF329; pfam03884 397945010496 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 397945010497 active site 397945010498 8-oxo-dGMP binding site [chemical binding]; other site 397945010499 nudix motif; other site 397945010500 metal binding site [ion binding]; metal-binding site 397945010501 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 397945010502 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 397945010503 Walker A motif; other site 397945010504 ATP binding site [chemical binding]; other site 397945010505 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 397945010506 heterotetramer interface [polypeptide binding]; other site 397945010507 active site pocket [active] 397945010508 cleavage site 397945010509 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 397945010510 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 397945010511 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 397945010512 nucleotide binding region [chemical binding]; other site 397945010513 SEC-C motif; Region: SEC-C; pfam02810 397945010514 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 397945010515 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945010516 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 397945010517 stringent starvation protein A; Provisional; Region: sspA; PRK09481 397945010518 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 397945010519 C-terminal domain interface [polypeptide binding]; other site 397945010520 putative GSH binding site (G-site) [chemical binding]; other site 397945010521 dimer interface [polypeptide binding]; other site 397945010522 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 397945010523 dimer interface [polypeptide binding]; other site 397945010524 N-terminal domain interface [polypeptide binding]; other site 397945010525 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 397945010526 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 397945010527 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 397945010528 Qi binding site; other site 397945010529 intrachain domain interface; other site 397945010530 interchain domain interface [polypeptide binding]; other site 397945010531 heme bH binding site [chemical binding]; other site 397945010532 heme bL binding site [chemical binding]; other site 397945010533 Qo binding site; other site 397945010534 interchain domain interface [polypeptide binding]; other site 397945010535 intrachain domain interface; other site 397945010536 Qi binding site; other site 397945010537 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 397945010538 Qo binding site; other site 397945010539 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 397945010540 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 397945010541 [2Fe-2S] cluster binding site [ion binding]; other site 397945010542 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 397945010543 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 397945010544 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 397945010545 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 397945010546 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 397945010547 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 397945010548 Walker A/P-loop; other site 397945010549 ATP binding site [chemical binding]; other site 397945010550 Q-loop/lid; other site 397945010551 ABC transporter signature motif; other site 397945010552 Walker B; other site 397945010553 D-loop; other site 397945010554 H-loop/switch region; other site 397945010555 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 397945010556 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 397945010557 FtsX-like permease family; Region: FtsX; pfam02687 397945010558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 397945010559 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 397945010560 DHH family; Region: DHH; pfam01368 397945010561 DHHA1 domain; Region: DHHA1; pfam02272 397945010562 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 397945010563 S-adenosylmethionine binding site [chemical binding]; other site 397945010564 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 397945010565 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 397945010566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010567 homodimer interface [polypeptide binding]; other site 397945010568 catalytic residue [active] 397945010569 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 397945010570 putative substrate translocation pore; other site 397945010571 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945010572 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 397945010573 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 397945010574 active site 397945010575 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 397945010576 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 397945010577 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 397945010578 Peptidase family M50; Region: Peptidase_M50; pfam02163 397945010579 active site 397945010580 putative substrate binding region [chemical binding]; other site 397945010581 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 397945010582 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 397945010583 active site 397945010584 HIGH motif; other site 397945010585 dimer interface [polypeptide binding]; other site 397945010586 KMSKS motif; other site 397945010587 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 397945010588 RHS Repeat; Region: RHS_repeat; pfam05593 397945010589 RHS Repeat; Region: RHS_repeat; pfam05593 397945010590 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010591 RHS Repeat; Region: RHS_repeat; cl11982 397945010592 RHS protein; Region: RHS; pfam03527 397945010593 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010594 AAA domain; Region: AAA_17; pfam13207 397945010595 AAA domain; Region: AAA_18; pfam13238 397945010596 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 397945010597 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 397945010598 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 397945010599 inhibitor-cofactor binding pocket; inhibition site 397945010600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010601 catalytic residue [active] 397945010602 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 397945010603 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 397945010604 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 397945010605 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 397945010606 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 397945010607 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945010608 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945010609 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 397945010610 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 397945010611 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 397945010612 Walker A/P-loop; other site 397945010613 ATP binding site [chemical binding]; other site 397945010614 Q-loop/lid; other site 397945010615 ABC transporter signature motif; other site 397945010616 Walker B; other site 397945010617 D-loop; other site 397945010618 H-loop/switch region; other site 397945010619 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 397945010620 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 397945010621 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 397945010622 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 397945010623 catalytic site [active] 397945010624 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 397945010625 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 397945010626 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 397945010627 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 397945010628 N-terminal plug; other site 397945010629 ligand-binding site [chemical binding]; other site 397945010630 Condensation domain; Region: Condensation; pfam00668 397945010631 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010632 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945010633 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 397945010634 acyl-activating enzyme (AAE) consensus motif; other site 397945010635 AMP binding site [chemical binding]; other site 397945010636 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010637 Thioesterase domain; Region: Thioesterase; pfam00975 397945010638 Condensation domain; Region: Condensation; pfam00668 397945010639 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945010640 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010641 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945010642 acyl-activating enzyme (AAE) consensus motif; other site 397945010643 AMP binding site [chemical binding]; other site 397945010644 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010645 Condensation domain; Region: Condensation; pfam00668 397945010646 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 397945010647 Condensation domain; Region: Condensation; pfam00668 397945010648 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945010649 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945010650 acyl-activating enzyme (AAE) consensus motif; other site 397945010651 AMP binding site [chemical binding]; other site 397945010652 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010653 Condensation domain; Region: Condensation; pfam00668 397945010654 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945010655 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010656 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945010657 acyl-activating enzyme (AAE) consensus motif; other site 397945010658 AMP binding site [chemical binding]; other site 397945010659 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010660 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 397945010661 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 397945010662 active site 397945010663 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 397945010664 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 397945010665 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 397945010666 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 397945010667 putative NADP binding site [chemical binding]; other site 397945010668 active site 397945010669 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010670 acyl-CoA synthetase; Validated; Region: PRK05850 397945010671 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 397945010672 acyl-activating enzyme (AAE) consensus motif; other site 397945010673 active site 397945010674 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010675 Condensation domain; Region: Condensation; pfam00668 397945010676 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945010677 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010678 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945010679 acyl-activating enzyme (AAE) consensus motif; other site 397945010680 AMP binding site [chemical binding]; other site 397945010681 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010682 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 397945010683 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 397945010684 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 397945010685 MbtH-like protein; Region: MbtH; cl01279 397945010686 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 397945010687 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945010688 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 397945010689 DNA binding residues [nucleotide binding] 397945010690 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 397945010691 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 397945010692 nucleotide binding site [chemical binding]; other site 397945010693 putative NEF/HSP70 interaction site [polypeptide binding]; other site 397945010694 SBD interface [polypeptide binding]; other site 397945010695 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 397945010696 nucleotide binding site [chemical binding]; other site 397945010697 putative NEF/HSP70 interaction site [polypeptide binding]; other site 397945010698 SBD interface [polypeptide binding]; other site 397945010699 DNA-K related protein; Region: DUF3731; pfam12531 397945010700 Protein of unknown function DUF43; Region: DUF43; pfam01861 397945010701 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; cl17890 397945010702 AAA domain; Region: AAA_18; pfam13238 397945010703 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 397945010704 Cl- selectivity filter; other site 397945010705 Cl- binding residues [ion binding]; other site 397945010706 pore gating glutamate residue; other site 397945010707 dimer interface [polypeptide binding]; other site 397945010708 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010709 RHS Repeat; Region: RHS_repeat; pfam05593 397945010710 RHS Repeat; Region: RHS_repeat; pfam05593 397945010711 RHS Repeat; Region: RHS_repeat; pfam05593 397945010712 RHS protein; Region: RHS; pfam03527 397945010713 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010714 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945010715 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945010716 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945010717 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 397945010718 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 397945010719 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 397945010720 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 397945010721 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 397945010722 dimer interface [polypeptide binding]; other site 397945010723 conserved gate region; other site 397945010724 putative PBP binding loops; other site 397945010725 ABC-ATPase subunit interface; other site 397945010726 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 397945010727 dimer interface [polypeptide binding]; other site 397945010728 conserved gate region; other site 397945010729 putative PBP binding loops; other site 397945010730 ABC-ATPase subunit interface; other site 397945010731 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945010732 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 397945010733 substrate binding pocket [chemical binding]; other site 397945010734 membrane-bound complex binding site; other site 397945010735 hinge residues; other site 397945010736 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945010737 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 397945010738 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 397945010739 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 397945010740 putative ligand binding site [chemical binding]; other site 397945010741 NAD binding site [chemical binding]; other site 397945010742 dimerization interface [polypeptide binding]; other site 397945010743 catalytic site [active] 397945010744 Dehydratase family; Region: ILVD_EDD; cl00340 397945010745 PAS domain S-box; Region: sensory_box; TIGR00229 397945010746 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 397945010747 putative active site [active] 397945010748 heme pocket [chemical binding]; other site 397945010749 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945010750 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945010751 metal binding site [ion binding]; metal-binding site 397945010752 active site 397945010753 I-site; other site 397945010754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945010755 metal binding site [ion binding]; metal-binding site 397945010756 active site 397945010757 I-site; other site 397945010758 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 397945010759 Winged helix-turn helix; Region: HTH_29; pfam13551 397945010760 Homeodomain-like domain; Region: HTH_32; pfam13565 397945010761 Integrase core domain; Region: rve; pfam00665 397945010762 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010763 Integrase core domain; Region: rve_3; pfam13683 397945010764 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945010765 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945010766 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945010767 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945010768 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945010769 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 397945010770 putative metal binding site [ion binding]; other site 397945010771 seryl-tRNA synthetase; Provisional; Region: PRK05431 397945010772 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 397945010773 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 397945010774 dimer interface [polypeptide binding]; other site 397945010775 active site 397945010776 motif 1; other site 397945010777 motif 2; other site 397945010778 motif 3; other site 397945010779 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 397945010780 threonine dehydratase; Provisional; Region: PRK08246 397945010781 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945010782 catalytic residue [active] 397945010783 FOG: CBS domain [General function prediction only]; Region: COG0517 397945010784 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 397945010785 Domain of unknown function DUF21; Region: DUF21; pfam01595 397945010786 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 397945010787 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 397945010788 Transporter associated domain; Region: CorC_HlyC; smart01091 397945010789 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 397945010790 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 397945010791 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 397945010792 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 397945010793 hypothetical protein; Reviewed; Region: PRK00024 397945010794 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 397945010795 MPN+ (JAMM) motif; other site 397945010796 Zinc-binding site [ion binding]; other site 397945010797 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 397945010798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 397945010799 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 397945010800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 397945010801 Smr domain; Region: Smr; pfam01713 397945010802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945010803 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 397945010804 ATP binding site [chemical binding]; other site 397945010805 Mg2+ binding site [ion binding]; other site 397945010806 G-X-G motif; other site 397945010807 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945010808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945010809 active site 397945010810 phosphorylation site [posttranslational modification] 397945010811 intermolecular recognition site; other site 397945010812 dimerization interface [polypeptide binding]; other site 397945010813 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 397945010814 DNA binding site [nucleotide binding] 397945010815 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 397945010816 Predicted membrane protein [Function unknown]; Region: COG3212 397945010817 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 397945010818 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 397945010819 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 397945010820 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 397945010821 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 397945010822 active site 397945010823 metal binding site [ion binding]; metal-binding site 397945010824 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 397945010825 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945010826 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945010827 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945010828 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 397945010829 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 397945010830 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010831 RHS Repeat; Region: RHS_repeat; pfam05593 397945010832 RHS Repeat; Region: RHS_repeat; pfam05593 397945010833 RHS Repeat; Region: RHS_repeat; pfam05593 397945010834 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010835 RHS Repeat; Region: RHS_repeat; pfam05593 397945010836 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945010837 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945010838 RHS protein; Region: RHS; pfam03527 397945010839 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010840 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945010841 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945010842 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945010843 Winged helix-turn helix; Region: HTH_29; pfam13551 397945010844 Homeodomain-like domain; Region: HTH_32; pfam13565 397945010845 Integrase core domain; Region: rve; pfam00665 397945010846 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010847 Integrase core domain; Region: rve_3; pfam13683 397945010848 RHS protein; Region: RHS; pfam03527 397945010849 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010850 RHS Repeat; Region: RHS_repeat; pfam05593 397945010851 RHS Repeat; Region: RHS_repeat; pfam05593 397945010852 RHS Repeat; Region: RHS_repeat; pfam05593 397945010853 RHS Repeat; Region: RHS_repeat; pfam05593 397945010854 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945010855 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 397945010856 Winged helix-turn helix; Region: HTH_29; pfam13551 397945010857 Homeodomain-like domain; Region: HTH_32; pfam13565 397945010858 Integrase core domain; Region: rve; pfam00665 397945010859 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010860 Integrase core domain; Region: rve_3; pfam13683 397945010861 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945010862 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 397945010863 active site 397945010864 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 397945010865 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 397945010866 active site 397945010867 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; Region: ACP_syn_III_C; pfam08541 397945010868 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 397945010869 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 397945010870 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945010871 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 397945010872 acyl-activating enzyme (AAE) consensus motif; other site 397945010873 putative AMP binding site [chemical binding]; other site 397945010874 putative active site [active] 397945010875 putative CoA binding site [chemical binding]; other site 397945010876 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 397945010877 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 397945010878 dimer interface [polypeptide binding]; other site 397945010879 active site 397945010880 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945010881 catalytic residues [active] 397945010882 substrate binding site [chemical binding]; other site 397945010883 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945010884 Acyl-CoA dehydrogenase, C-terminal domain; Region: Acyl-CoA_dh_1; pfam00441 397945010885 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945010886 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 397945010887 active site 397945010888 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 397945010889 active site 397945010890 Autoinducer binding domain; Region: Autoind_bind; pfam03472 397945010891 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 397945010892 DNA binding residues [nucleotide binding] 397945010893 Autoinducer synthetase; Region: Autoind_synth; cl17404 397945010894 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945010895 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 397945010896 active site 397945010897 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945010898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945010899 DNA-binding site [nucleotide binding]; DNA binding site 397945010900 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 397945010901 Amino acid synthesis; Region: AA_synth; pfam06684 397945010902 putative amidase; Provisional; Region: PRK06169 397945010903 Amidase; Region: Amidase; cl11426 397945010904 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945010905 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 397945010906 ligand binding site [chemical binding]; other site 397945010907 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945010908 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945010909 Walker A/P-loop; other site 397945010910 ATP binding site [chemical binding]; other site 397945010911 Q-loop/lid; other site 397945010912 ABC transporter signature motif; other site 397945010913 Walker B; other site 397945010914 D-loop; other site 397945010915 H-loop/switch region; other site 397945010916 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 397945010917 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945010918 Walker A/P-loop; other site 397945010919 ATP binding site [chemical binding]; other site 397945010920 Q-loop/lid; other site 397945010921 ABC transporter signature motif; other site 397945010922 Walker B; other site 397945010923 D-loop; other site 397945010924 H-loop/switch region; other site 397945010925 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945010926 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 397945010927 TM-ABC transporter signature motif; other site 397945010928 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 397945010929 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945010930 TM-ABC transporter signature motif; other site 397945010931 putative amidase; Provisional; Region: PRK06169 397945010932 Amidase; Region: Amidase; pfam01425 397945010933 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 397945010934 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 397945010935 tetrameric interface [polypeptide binding]; other site 397945010936 NAD binding site [chemical binding]; other site 397945010937 catalytic residues [active] 397945010938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945010939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945010940 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 397945010941 putative effector binding pocket; other site 397945010942 dimerization interface [polypeptide binding]; other site 397945010943 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 397945010944 FtsX-like permease family; Region: FtsX; pfam02687 397945010945 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 397945010946 TRAP binding interface [polypeptide binding]; other site 397945010947 Zn binding site [ion binding]; other site 397945010948 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 397945010949 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 397945010950 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 397945010951 putative molybdopterin cofactor binding site [chemical binding]; other site 397945010952 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 397945010953 putative molybdopterin cofactor binding site; other site 397945010954 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 397945010955 dimerization interface [polypeptide binding]; other site 397945010956 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945010957 dimer interface [polypeptide binding]; other site 397945010958 putative CheW interface [polypeptide binding]; other site 397945010959 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945010960 Domain of unknown function DUF59; Region: DUF59; pfam01883 397945010961 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 397945010962 Walker A motif; other site 397945010963 Restriction endonuclease; Region: Mrr_cat; pfam04471 397945010964 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945010965 active site 397945010966 nucleophile elbow; other site 397945010967 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945010968 pyruvate dehydrogenase; Provisional; Region: PRK09124 397945010969 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 397945010970 PYR/PP interface [polypeptide binding]; other site 397945010971 dimer interface [polypeptide binding]; other site 397945010972 tetramer interface [polypeptide binding]; other site 397945010973 TPP binding site [chemical binding]; other site 397945010974 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 397945010975 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 397945010976 TPP-binding site [chemical binding]; other site 397945010977 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 397945010978 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 397945010979 active site 397945010980 HIGH motif; other site 397945010981 KMSKS motif; other site 397945010982 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 397945010983 tRNA binding surface [nucleotide binding]; other site 397945010984 anticodon binding site; other site 397945010985 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 397945010986 dimer interface [polypeptide binding]; other site 397945010987 putative tRNA-binding site [nucleotide binding]; other site 397945010988 Uncharacterized conserved protein [Function unknown]; Region: COG1284 397945010989 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945010990 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945010991 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 397945010992 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 397945010993 L-aspartate oxidase; Provisional; Region: PRK09077 397945010994 L-aspartate oxidase; Provisional; Region: PRK06175 397945010995 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 397945010996 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 397945010997 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 397945010998 inhibitor-cofactor binding pocket; inhibition site 397945010999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011000 catalytic residue [active] 397945011001 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 397945011002 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 397945011003 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 397945011004 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945011005 catalytic residue [active] 397945011006 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 397945011007 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 397945011008 FeS/SAM binding site; other site 397945011009 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 397945011010 active site 397945011011 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 397945011012 putative substrate binding pocket [chemical binding]; other site 397945011013 trimer interface [polypeptide binding]; other site 397945011014 aminodeoxychorismate synthase; Provisional; Region: PRK07508 397945011015 chorismate binding enzyme; Region: Chorismate_bind; cl10555 397945011016 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 397945011017 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 397945011018 substrate-cofactor binding pocket; other site 397945011019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011020 quinolinate synthetase; Provisional; Region: PRK09375 397945011021 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 397945011022 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 397945011023 dimerization interface [polypeptide binding]; other site 397945011024 active site 397945011025 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 397945011026 oligomerization interface [polypeptide binding]; other site 397945011027 active site 397945011028 metal binding site [ion binding]; metal-binding site 397945011029 Pantoate-beta-alanine ligase; Region: PanC; cd00560 397945011030 pantoate--beta-alanine ligase; Region: panC; TIGR00018 397945011031 active site 397945011032 ATP-binding site [chemical binding]; other site 397945011033 pantoate-binding site; other site 397945011034 HXXH motif; other site 397945011035 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 397945011036 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 397945011037 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 397945011038 preprotein translocase subunit SecB; Validated; Region: PRK05751 397945011039 SecA binding site; other site 397945011040 Preprotein binding site; other site 397945011041 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 397945011042 GSH binding site [chemical binding]; other site 397945011043 catalytic residues [active] 397945011044 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 397945011045 active site residue [active] 397945011046 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 397945011047 catalytic core [active] 397945011048 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 397945011049 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 397945011050 C-terminal peptidase (prc); Region: prc; TIGR00225 397945011051 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 397945011052 protein binding site [polypeptide binding]; other site 397945011053 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 397945011054 Catalytic dyad [active] 397945011055 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 397945011056 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 397945011057 ATP binding site [chemical binding]; other site 397945011058 substrate interface [chemical binding]; other site 397945011059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011060 Response regulator receiver domain; Region: Response_reg; pfam00072 397945011061 active site 397945011062 phosphorylation site [posttranslational modification] 397945011063 intermolecular recognition site; other site 397945011064 dimerization interface [polypeptide binding]; other site 397945011065 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945011066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011067 active site 397945011068 phosphorylation site [posttranslational modification] 397945011069 intermolecular recognition site; other site 397945011070 dimerization interface [polypeptide binding]; other site 397945011071 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 397945011072 DNA binding residues [nucleotide binding] 397945011073 dimerization interface [polypeptide binding]; other site 397945011074 CHASE3 domain; Region: CHASE3; pfam05227 397945011075 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 397945011076 Histidine kinase; Region: HisKA_3; pfam07730 397945011077 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 397945011078 ATP binding site [chemical binding]; other site 397945011079 Mg2+ binding site [ion binding]; other site 397945011080 G-X-G motif; other site 397945011081 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 397945011082 Ferritin-like domain; Region: Ferritin; pfam00210 397945011083 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 397945011084 dinuclear metal binding motif [ion binding]; other site 397945011085 BON domain; Region: BON; pfam04972 397945011086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 397945011087 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 397945011088 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 397945011089 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 397945011090 active site 397945011091 (T/H)XGH motif; other site 397945011092 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 397945011093 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 397945011094 S-adenosylmethionine binding site [chemical binding]; other site 397945011095 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 397945011096 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 397945011097 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 397945011098 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 397945011099 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 397945011100 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 397945011101 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 397945011102 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 397945011103 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945011104 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 397945011105 short chain dehydrogenase; Validated; Region: PRK07069 397945011106 NAD binding site [chemical binding]; other site 397945011107 homotetramer interface [polypeptide binding]; other site 397945011108 homodimer interface [polypeptide binding]; other site 397945011109 active site 397945011110 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 397945011111 Hemerythrin-like domain; Region: Hr-like; cd12108 397945011112 Fe binding site [ion binding]; other site 397945011113 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945011114 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 397945011115 dimerization interface [polypeptide binding]; other site 397945011116 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945011117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945011118 dimer interface [polypeptide binding]; other site 397945011119 putative CheW interface [polypeptide binding]; other site 397945011120 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 397945011121 conserved cys residue [active] 397945011122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945011123 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 397945011124 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 397945011125 conserved cys residue [active] 397945011126 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011127 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 397945011128 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 397945011129 MarC family integral membrane protein; Region: MarC; cl00919 397945011130 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 397945011131 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 397945011132 tetramer interface [polypeptide binding]; other site 397945011133 active site 397945011134 Mg2+/Mn2+ binding site [ion binding]; other site 397945011135 aspartate aminotransferase; Provisional; Region: PRK05764 397945011136 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 397945011137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011138 homodimer interface [polypeptide binding]; other site 397945011139 catalytic residue [active] 397945011140 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 397945011141 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 397945011142 dimer interface [polypeptide binding]; other site 397945011143 conserved gate region; other site 397945011144 putative PBP binding loops; other site 397945011145 ABC-ATPase subunit interface; other site 397945011146 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 397945011147 dimer interface [polypeptide binding]; other site 397945011148 conserved gate region; other site 397945011149 putative PBP binding loops; other site 397945011150 ABC-ATPase subunit interface; other site 397945011151 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 397945011152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945011153 Walker A/P-loop; other site 397945011154 ATP binding site [chemical binding]; other site 397945011155 Q-loop/lid; other site 397945011156 ABC transporter signature motif; other site 397945011157 Walker B; other site 397945011158 D-loop; other site 397945011159 H-loop/switch region; other site 397945011160 TOBE domain; Region: TOBE_2; pfam08402 397945011161 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945011162 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 397945011163 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945011164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011165 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 397945011166 dimerization interface [polypeptide binding]; other site 397945011167 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 397945011168 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 397945011169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945011170 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 397945011171 DNA binding residues [nucleotide binding] 397945011172 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011173 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 397945011174 NAD(P) binding site [chemical binding]; other site 397945011175 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 397945011176 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945011177 ligand binding site [chemical binding]; other site 397945011178 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 397945011179 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 397945011180 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 397945011181 Cu(I) binding site [ion binding]; other site 397945011182 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 397945011183 UbiA prenyltransferase family; Region: UbiA; pfam01040 397945011184 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 397945011185 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 397945011186 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 397945011187 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 397945011188 Subunit III/VIIa interface [polypeptide binding]; other site 397945011189 Phospholipid binding site [chemical binding]; other site 397945011190 Subunit I/III interface [polypeptide binding]; other site 397945011191 Subunit III/VIb interface [polypeptide binding]; other site 397945011192 Subunit III/VIa interface; other site 397945011193 Subunit III/Vb interface [polypeptide binding]; other site 397945011194 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 397945011195 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 397945011196 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 397945011197 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 397945011198 Subunit I/III interface [polypeptide binding]; other site 397945011199 D-pathway; other site 397945011200 Subunit I/VIIc interface [polypeptide binding]; other site 397945011201 Subunit I/IV interface [polypeptide binding]; other site 397945011202 Subunit I/II interface [polypeptide binding]; other site 397945011203 Low-spin heme (heme a) binding site [chemical binding]; other site 397945011204 Subunit I/VIIa interface [polypeptide binding]; other site 397945011205 Subunit I/VIa interface [polypeptide binding]; other site 397945011206 Dimer interface; other site 397945011207 Putative water exit pathway; other site 397945011208 Binuclear center (heme a3/CuB) [ion binding]; other site 397945011209 K-pathway; other site 397945011210 Subunit I/Vb interface [polypeptide binding]; other site 397945011211 Putative proton exit pathway; other site 397945011212 Subunit I/VIb interface; other site 397945011213 Subunit I/VIc interface [polypeptide binding]; other site 397945011214 Electron transfer pathway; other site 397945011215 Subunit I/VIIIb interface [polypeptide binding]; other site 397945011216 Subunit I/VIIb interface [polypeptide binding]; other site 397945011217 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 397945011218 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 397945011219 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 397945011220 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 397945011221 Cytochrome c; Region: Cytochrom_C; pfam00034 397945011222 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 397945011223 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 397945011224 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 397945011225 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 397945011226 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 397945011227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945011228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011229 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 397945011230 putative effector binding pocket; other site 397945011231 dimerization interface [polypeptide binding]; other site 397945011232 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 397945011233 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 397945011234 putative active site [active] 397945011235 putative catalytic site [active] 397945011236 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945011237 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 397945011238 P-loop; other site 397945011239 Magnesium ion binding site [ion binding]; other site 397945011240 LysE type translocator; Region: LysE; cl00565 397945011241 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 397945011242 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 397945011243 TrkA-N domain; Region: TrkA_N; pfam02254 397945011244 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 397945011245 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 397945011246 N-terminal plug; other site 397945011247 ligand-binding site [chemical binding]; other site 397945011248 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 397945011249 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945011250 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 397945011251 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 397945011252 MarR family; Region: MarR_2; cl17246 397945011253 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945011254 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 397945011255 PAS domain; Region: PAS_9; pfam13426 397945011256 putative active site [active] 397945011257 heme pocket [chemical binding]; other site 397945011258 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945011259 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945011260 dimer interface [polypeptide binding]; other site 397945011261 putative CheW interface [polypeptide binding]; other site 397945011262 benzoate transport; Region: 2A0115; TIGR00895 397945011263 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 397945011264 putative substrate translocation pore; other site 397945011265 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 397945011266 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 397945011267 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 397945011268 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 397945011269 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 397945011270 catalytic loop [active] 397945011271 iron binding site [ion binding]; other site 397945011272 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 397945011273 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 397945011274 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 397945011275 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945011276 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945011277 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 397945011278 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 397945011279 Isochorismatase family; Region: Isochorismatase; pfam00857 397945011280 catalytic triad [active] 397945011281 substrate binding site [chemical binding]; other site 397945011282 domain interfaces; other site 397945011283 conserved cis-peptide bond; other site 397945011284 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945011285 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 397945011286 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 397945011287 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945011288 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945011289 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 397945011290 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 397945011291 XdhC Rossmann domain; Region: XdhC_C; pfam13478 397945011292 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945011293 MarR family; Region: MarR_2; pfam12802 397945011294 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 397945011295 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 397945011296 NADP binding site [chemical binding]; other site 397945011297 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 397945011298 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 397945011299 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011300 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 397945011301 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 397945011302 short chain dehydrogenase; Provisional; Region: PRK07577 397945011303 classical (c) SDRs; Region: SDR_c; cd05233 397945011304 NAD(P) binding site [chemical binding]; other site 397945011305 active site 397945011306 YciI-like protein; Reviewed; Region: PRK12863 397945011307 Putative cyclase; Region: Cyclase; cl00814 397945011308 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 397945011309 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 397945011310 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 397945011311 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 397945011312 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 397945011313 dimer interface [polypeptide binding]; other site 397945011314 active site 397945011315 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 397945011316 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 397945011317 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 397945011318 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 397945011319 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945011320 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 397945011321 Cytochrome c; Region: Cytochrom_C; cl11414 397945011322 Cytochrome c; Region: Cytochrom_C; cl11414 397945011323 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 397945011324 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 397945011325 Walker A motif; other site 397945011326 ATP binding site [chemical binding]; other site 397945011327 Walker B motif; other site 397945011328 arginine finger; other site 397945011329 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 397945011330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 397945011331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 397945011332 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 397945011333 Surface antigen; Region: Bac_surface_Ag; pfam01103 397945011334 Family of unknown function (DUF490); Region: DUF490; pfam04357 397945011335 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 397945011336 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 397945011337 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945011338 putative active site [active] 397945011339 catalytic site [active] 397945011340 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 397945011341 putative active site [active] 397945011342 catalytic site [active] 397945011343 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 397945011344 sensor protein QseC; Provisional; Region: PRK10337 397945011345 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 397945011346 ATP binding site [chemical binding]; other site 397945011347 Mg2+ binding site [ion binding]; other site 397945011348 G-X-G motif; other site 397945011349 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945011350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011351 active site 397945011352 phosphorylation site [posttranslational modification] 397945011353 intermolecular recognition site; other site 397945011354 dimerization interface [polypeptide binding]; other site 397945011355 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 397945011356 DNA binding site [nucleotide binding] 397945011357 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 397945011358 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 397945011359 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 397945011360 protein binding site [polypeptide binding]; other site 397945011361 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 397945011362 protein binding site [polypeptide binding]; other site 397945011363 SnoaL-like domain; Region: SnoaL_2; pfam12680 397945011364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945011365 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 397945011366 dimer interface [polypeptide binding]; other site 397945011367 active site 397945011368 metal binding site [ion binding]; metal-binding site 397945011369 glutathione binding site [chemical binding]; other site 397945011370 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 397945011371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945011372 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 397945011373 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 397945011374 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 397945011375 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 397945011376 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 397945011377 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 397945011378 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 397945011379 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 397945011380 type II secretion system protein F; Region: GspF; TIGR02120 397945011381 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945011382 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945011383 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 397945011384 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 397945011385 Ca2+ binding site [ion binding]; other site 397945011386 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 397945011387 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 397945011388 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 397945011389 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 397945011390 Walker A/P-loop; other site 397945011391 ATP binding site [chemical binding]; other site 397945011392 Q-loop/lid; other site 397945011393 ABC transporter signature motif; other site 397945011394 Walker B; other site 397945011395 D-loop; other site 397945011396 H-loop/switch region; other site 397945011397 cyanophycin synthetase; Provisional; Region: PRK14016 397945011398 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 397945011399 cyanophycin synthetase; Provisional; Region: PRK14016 397945011400 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 397945011401 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945011402 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945011403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 397945011404 CreA protein; Region: CreA; pfam05981 397945011405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011406 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945011407 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 397945011408 dimerization interface [polypeptide binding]; other site 397945011409 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945011410 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945011411 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011412 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 397945011413 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 397945011414 catalytic residues [active] 397945011415 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 397945011416 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 397945011417 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 397945011418 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 397945011419 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 397945011420 heme binding pocket [chemical binding]; other site 397945011421 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 397945011422 domain interactions; other site 397945011423 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945011424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011425 active site 397945011426 phosphorylation site [posttranslational modification] 397945011427 intermolecular recognition site; other site 397945011428 dimerization interface [polypeptide binding]; other site 397945011429 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945011430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011431 active site 397945011432 phosphorylation site [posttranslational modification] 397945011433 intermolecular recognition site; other site 397945011434 dimerization interface [polypeptide binding]; other site 397945011435 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 397945011436 dimer interface [polypeptide binding]; other site 397945011437 phosphorylation site [posttranslational modification] 397945011438 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 397945011439 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 397945011440 ATP binding site [chemical binding]; other site 397945011441 Mg2+ binding site [ion binding]; other site 397945011442 G-X-G motif; other site 397945011443 CheB methylesterase; Region: CheB_methylest; pfam01339 397945011444 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 397945011445 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945011446 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 397945011447 CHASE3 domain; Region: CHASE3; pfam05227 397945011448 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 397945011449 dimer interface [polypeptide binding]; other site 397945011450 phosphorylation site [posttranslational modification] 397945011451 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 397945011452 ATP binding site [chemical binding]; other site 397945011453 Mg2+ binding site [ion binding]; other site 397945011454 G-X-G motif; other site 397945011455 Response regulator receiver domain; Region: Response_reg; pfam00072 397945011456 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011457 active site 397945011458 phosphorylation site [posttranslational modification] 397945011459 intermolecular recognition site; other site 397945011460 dimerization interface [polypeptide binding]; other site 397945011461 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945011462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011463 active site 397945011464 phosphorylation site [posttranslational modification] 397945011465 intermolecular recognition site; other site 397945011466 dimerization interface [polypeptide binding]; other site 397945011467 Response regulator receiver domain; Region: Response_reg; pfam00072 397945011468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011469 active site 397945011470 phosphorylation site [posttranslational modification] 397945011471 intermolecular recognition site; other site 397945011472 dimerization interface [polypeptide binding]; other site 397945011473 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 397945011474 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945011475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945011476 metal binding site [ion binding]; metal-binding site 397945011477 active site 397945011478 I-site; other site 397945011479 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945011480 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 397945011481 N-terminal plug; other site 397945011482 ligand-binding site [chemical binding]; other site 397945011483 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 397945011484 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 397945011485 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 397945011486 ABC-ATPase subunit interface; other site 397945011487 putative PBP binding loops; other site 397945011488 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 397945011489 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 397945011490 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 397945011491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945011492 Walker A/P-loop; other site 397945011493 ATP binding site [chemical binding]; other site 397945011494 Q-loop/lid; other site 397945011495 ABC transporter signature motif; other site 397945011496 Walker B; other site 397945011497 D-loop; other site 397945011498 H-loop/switch region; other site 397945011499 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945011500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945011501 Walker A/P-loop; other site 397945011502 ATP binding site [chemical binding]; other site 397945011503 Q-loop/lid; other site 397945011504 ABC transporter signature motif; other site 397945011505 Walker B; other site 397945011506 D-loop; other site 397945011507 H-loop/switch region; other site 397945011508 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 397945011509 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 397945011510 ATP binding site [chemical binding]; other site 397945011511 putative Mg++ binding site [ion binding]; other site 397945011512 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 397945011513 nucleotide binding region [chemical binding]; other site 397945011514 ATP-binding site [chemical binding]; other site 397945011515 AP2 domain; Region: AP2; pfam00847 397945011516 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945011517 RHS Repeat; Region: RHS_repeat; pfam05593 397945011518 RHS Repeat; Region: RHS_repeat; pfam05593 397945011519 RHS Repeat; Region: RHS_repeat; pfam05593 397945011520 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945011521 RHS protein; Region: RHS; pfam03527 397945011522 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945011523 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945011524 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 397945011525 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945011526 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 397945011527 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 397945011528 XdhC Rossmann domain; Region: XdhC_C; pfam13478 397945011529 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 397945011530 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 397945011531 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945011532 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 397945011533 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 397945011534 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 397945011535 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 397945011536 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 397945011537 Ligand binding site; other site 397945011538 metal-binding site 397945011539 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945011540 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 397945011541 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 397945011542 NAD binding site [chemical binding]; other site 397945011543 catalytic Zn binding site [ion binding]; other site 397945011544 structural Zn binding site [ion binding]; other site 397945011545 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 397945011546 dimer interface [polypeptide binding]; other site 397945011547 FMN binding site [chemical binding]; other site 397945011548 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 397945011549 nudix motif; other site 397945011550 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 397945011551 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 397945011552 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 397945011553 active site 397945011554 metal binding site [ion binding]; metal-binding site 397945011555 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 397945011556 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 397945011557 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 397945011558 putative dimerization interface [polypeptide binding]; other site 397945011559 Predicted membrane protein [Function unknown]; Region: COG2855 397945011560 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945011561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945011562 Integrase core domain; Region: rve; pfam00665 397945011563 Integrase core domain; Region: rve_3; pfam13683 397945011564 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 397945011565 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945011566 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 397945011567 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 397945011568 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 397945011569 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 397945011570 putative active site [active] 397945011571 putative metal binding residues [ion binding]; other site 397945011572 signature motif; other site 397945011573 putative triphosphate binding site [ion binding]; other site 397945011574 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 397945011575 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 397945011576 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 397945011577 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 397945011578 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 397945011579 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 397945011580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945011581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011582 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 397945011583 dimerization interface [polypeptide binding]; other site 397945011584 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 397945011585 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 397945011586 glutaminase active site [active] 397945011587 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 397945011588 dimer interface [polypeptide binding]; other site 397945011589 active site 397945011590 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 397945011591 dimer interface [polypeptide binding]; other site 397945011592 active site 397945011593 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 397945011594 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945011595 putative DNA binding site [nucleotide binding]; other site 397945011596 putative Zn2+ binding site [ion binding]; other site 397945011597 AsnC family; Region: AsnC_trans_reg; pfam01037 397945011598 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 397945011599 dimer interface [polypeptide binding]; other site 397945011600 phosphorylation site [posttranslational modification] 397945011601 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 397945011602 ATP binding site [chemical binding]; other site 397945011603 Mg2+ binding site [ion binding]; other site 397945011604 G-X-G motif; other site 397945011605 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 397945011606 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 397945011607 Substrate binding site; other site 397945011608 Mg++ binding site; other site 397945011609 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 397945011610 active site 397945011611 substrate binding site [chemical binding]; other site 397945011612 CoA binding site [chemical binding]; other site 397945011613 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 397945011614 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945011615 ligand binding site [chemical binding]; other site 397945011616 flexible hinge region; other site 397945011617 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 397945011618 putative switch regulator; other site 397945011619 non-specific DNA interactions [nucleotide binding]; other site 397945011620 DNA binding site [nucleotide binding] 397945011621 sequence specific DNA binding site [nucleotide binding]; other site 397945011622 putative cAMP binding site [chemical binding]; other site 397945011623 Sensors of blue-light using FAD; Region: BLUF; smart01034 397945011624 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 397945011625 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 397945011626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011627 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945011628 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945011629 dimerization interface [polypeptide binding]; other site 397945011630 substrate binding pocket [chemical binding]; other site 397945011631 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 397945011632 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 397945011633 active site 397945011634 HIGH motif; other site 397945011635 dimer interface [polypeptide binding]; other site 397945011636 KMSKS motif; other site 397945011637 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 397945011638 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945011639 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 397945011640 putative transporter; Provisional; Region: PRK10504 397945011641 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 397945011642 putative substrate translocation pore; other site 397945011643 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 397945011644 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 397945011645 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 397945011646 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 397945011647 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 397945011648 23S rRNA interface [nucleotide binding]; other site 397945011649 L3 interface [polypeptide binding]; other site 397945011650 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945011651 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945011652 active site 397945011653 ATP binding site [chemical binding]; other site 397945011654 substrate binding site [chemical binding]; other site 397945011655 activation loop (A-loop); other site 397945011656 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 397945011657 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 397945011658 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 397945011659 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 397945011660 FAD binding site [chemical binding]; other site 397945011661 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 397945011662 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 397945011663 FtsJ-like methyltransferase; Region: FtsJ; cl17430 397945011664 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 397945011665 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 397945011666 homotetramer interface [polypeptide binding]; other site 397945011667 ligand binding site [chemical binding]; other site 397945011668 catalytic site [active] 397945011669 NAD binding site [chemical binding]; other site 397945011670 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 397945011671 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 397945011672 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 397945011673 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 397945011674 G1 box; other site 397945011675 putative GEF interaction site [polypeptide binding]; other site 397945011676 GTP/Mg2+ binding site [chemical binding]; other site 397945011677 Switch I region; other site 397945011678 G2 box; other site 397945011679 G3 box; other site 397945011680 Switch II region; other site 397945011681 G4 box; other site 397945011682 G5 box; other site 397945011683 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 397945011684 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 397945011685 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 397945011686 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 397945011687 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 397945011688 Ligand binding site; other site 397945011689 Putative Catalytic site; other site 397945011690 DXD motif; other site 397945011691 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 397945011692 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 397945011693 active site 397945011694 motif I; other site 397945011695 motif II; other site 397945011696 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 397945011697 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011698 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945011699 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 397945011700 Walker A/P-loop; other site 397945011701 ATP binding site [chemical binding]; other site 397945011702 Q-loop/lid; other site 397945011703 ABC transporter signature motif; other site 397945011704 Walker B; other site 397945011705 D-loop; other site 397945011706 H-loop/switch region; other site 397945011707 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 397945011708 dimer interface [polypeptide binding]; other site 397945011709 conserved gate region; other site 397945011710 putative PBP binding loops; other site 397945011711 ABC-ATPase subunit interface; other site 397945011712 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 397945011713 dimer interface [polypeptide binding]; other site 397945011714 conserved gate region; other site 397945011715 putative PBP binding loops; other site 397945011716 ABC-ATPase subunit interface; other site 397945011717 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 397945011718 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 397945011719 substrate binding pocket [chemical binding]; other site 397945011720 membrane-bound complex binding site; other site 397945011721 hinge residues; other site 397945011722 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 397945011723 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 397945011724 substrate binding pocket [chemical binding]; other site 397945011725 membrane-bound complex binding site; other site 397945011726 hinge residues; other site 397945011727 cell density-dependent motility repressor; Provisional; Region: PRK10082 397945011728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011729 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 397945011730 dimerization interface [polypeptide binding]; other site 397945011731 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 397945011732 DctM-like transporters; Region: DctM; pfam06808 397945011733 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 397945011734 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945011735 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 397945011736 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 397945011737 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 397945011738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945011739 Walker A/P-loop; other site 397945011740 ATP binding site [chemical binding]; other site 397945011741 Q-loop/lid; other site 397945011742 ABC transporter signature motif; other site 397945011743 Walker B; other site 397945011744 D-loop; other site 397945011745 H-loop/switch region; other site 397945011746 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 397945011747 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 397945011748 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011749 enoyl-CoA hydratase; Provisional; Region: PRK06688 397945011750 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 397945011751 substrate binding site [chemical binding]; other site 397945011752 oxyanion hole (OAH) forming residues; other site 397945011753 trimer interface [polypeptide binding]; other site 397945011754 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 397945011755 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 397945011756 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 397945011757 dimer interface [polypeptide binding]; other site 397945011758 active site 397945011759 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 397945011760 CoenzymeA binding site [chemical binding]; other site 397945011761 subunit interaction site [polypeptide binding]; other site 397945011762 PHB binding site; other site 397945011763 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 397945011764 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 397945011765 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011766 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011767 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 397945011768 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 397945011769 substrate binding site [chemical binding]; other site 397945011770 oxyanion hole (OAH) forming residues; other site 397945011771 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 397945011772 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 397945011773 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 397945011774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945011775 active site 397945011776 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 397945011777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945011778 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945011779 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 397945011780 Phage-related minor tail protein [Function unknown]; Region: COG5281 397945011781 tape measure domain; Region: tape_meas_nterm; TIGR02675 397945011782 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945011783 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 397945011784 P-loop; other site 397945011785 Magnesium ion binding site [ion binding]; other site 397945011786 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 397945011787 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 397945011788 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 397945011789 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 397945011790 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 397945011791 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 397945011792 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 397945011793 catalytic residue [active] 397945011794 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 397945011795 non-specific DNA binding site [nucleotide binding]; other site 397945011796 salt bridge; other site 397945011797 sequence-specific DNA binding site [nucleotide binding]; other site 397945011798 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945011799 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 397945011800 Catalytic site [active] 397945011801 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 397945011802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 397945011803 Transposase; Region: HTH_Tnp_1; pfam01527 397945011804 putative transposase OrfB; Reviewed; Region: PHA02517 397945011805 HTH-like domain; Region: HTH_21; pfam13276 397945011806 Integrase core domain; Region: rve; pfam00665 397945011807 Integrase core domain; Region: rve_3; pfam13683 397945011808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945011809 Integrase core domain; Region: rve; pfam00665 397945011810 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 397945011811 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 397945011812 AAA domain; Region: AAA_22; pfam13401 397945011813 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 397945011814 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 397945011815 Imelysin; Region: Peptidase_M75; cl09159 397945011816 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 397945011817 Mor transcription activator family; Region: Mor; cl02360 397945011818 division inhibitor protein; Provisional; Region: slmA; PRK09480 397945011819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945011820 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 397945011821 dimer interface [polypeptide binding]; other site 397945011822 phosphorylation site [posttranslational modification] 397945011823 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 397945011824 Mg2+ binding site [ion binding]; other site 397945011825 G-X-G motif; other site 397945011826 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945011827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945011828 active site 397945011829 phosphorylation site [posttranslational modification] 397945011830 intermolecular recognition site; other site 397945011831 dimerization interface [polypeptide binding]; other site 397945011832 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 397945011833 DNA binding site [nucleotide binding] 397945011834 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 397945011835 feedback inhibition sensing region; other site 397945011836 homohexameric interface [polypeptide binding]; other site 397945011837 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 397945011838 nucleotide binding site [chemical binding]; other site 397945011839 N-acetyl-L-glutamate binding site [chemical binding]; other site 397945011840 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 397945011841 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 397945011842 Mg++ binding site [ion binding]; other site 397945011843 putative catalytic motif [active] 397945011844 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 397945011845 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 397945011846 Methyltransferase domain; Region: Methyltransf_23; pfam13489 397945011847 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 397945011848 S-adenosylmethionine binding site [chemical binding]; other site 397945011849 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 397945011850 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 397945011851 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 397945011852 Probable Catalytic site; other site 397945011853 metal-binding site 397945011854 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 397945011855 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945011856 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 397945011857 S-adenosylmethionine binding site [chemical binding]; other site 397945011858 Methyltransferase domain; Region: Methyltransf_23; pfam13489 397945011859 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 397945011860 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 397945011861 Walker A/P-loop; other site 397945011862 ATP binding site [chemical binding]; other site 397945011863 Q-loop/lid; other site 397945011864 ABC transporter signature motif; other site 397945011865 Walker B; other site 397945011866 D-loop; other site 397945011867 H-loop/switch region; other site 397945011868 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 397945011869 putative carbohydrate binding site [chemical binding]; other site 397945011870 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 397945011871 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 397945011872 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 397945011873 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945011874 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945011875 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945011876 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 397945011877 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 397945011878 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 397945011879 general secretion pathway protein J; Validated; Region: PRK08808 397945011880 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 397945011881 type II secretion system protein I; Region: gspI; TIGR01707 397945011882 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 397945011883 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 397945011884 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 397945011885 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 397945011886 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945011887 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 397945011888 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 397945011889 type II secretion system protein E; Region: type_II_gspE; TIGR02533 397945011890 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945011891 Walker A motif; other site 397945011892 ATP binding site [chemical binding]; other site 397945011893 Walker B motif; other site 397945011894 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 397945011895 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 397945011896 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 397945011897 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 397945011898 substrate binding site; other site 397945011899 tetramer interface; other site 397945011900 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 397945011901 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 397945011902 NADP binding site [chemical binding]; other site 397945011903 active site 397945011904 putative substrate binding site [chemical binding]; other site 397945011905 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 397945011906 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 397945011907 NAD binding site [chemical binding]; other site 397945011908 substrate binding site [chemical binding]; other site 397945011909 homodimer interface [polypeptide binding]; other site 397945011910 active site 397945011911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945011912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945011913 Bacterial transcriptional repressor; Region: TetR; pfam13972 397945011914 pantothenate kinase; Reviewed; Region: PRK13329 397945011915 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 397945011916 BON domain; Region: BON; pfam04972 397945011917 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 397945011918 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 397945011919 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 397945011920 active site residue [active] 397945011921 Protein of unknown function DUF45; Region: DUF45; pfam01863 397945011922 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 397945011923 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945011924 putative acyl-acceptor binding pocket; other site 397945011925 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 397945011926 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 397945011927 active site 397945011928 motif I; other site 397945011929 motif II; other site 397945011930 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 397945011931 DALR anticodon binding domain; Region: DALR_1; pfam05746 397945011932 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 397945011933 dimer interface [polypeptide binding]; other site 397945011934 motif 1; other site 397945011935 active site 397945011936 motif 2; other site 397945011937 motif 3; other site 397945011938 Cytochrome c [Energy production and conversion]; Region: COG3258 397945011939 Cytochrome c; Region: Cytochrom_C; pfam00034 397945011940 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 397945011941 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 397945011942 dimer interface [polypeptide binding]; other site 397945011943 active site 397945011944 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 397945011945 dimer interface [polypeptide binding]; other site 397945011946 active site 1 [active] 397945011947 active site 2 [active] 397945011948 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 397945011949 homodimer interface [polypeptide binding]; other site 397945011950 active site 397945011951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945011952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945011953 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 397945011954 dimerization interface [polypeptide binding]; other site 397945011955 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 397945011956 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 397945011957 putative active site [active] 397945011958 catalytic triad [active] 397945011959 putative dimer interface [polypeptide binding]; other site 397945011960 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 397945011961 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 397945011962 Transporter associated domain; Region: CorC_HlyC; smart01091 397945011963 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945011964 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 397945011965 Coenzyme A binding pocket [chemical binding]; other site 397945011966 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945011967 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 397945011968 putative DNA binding site [nucleotide binding]; other site 397945011969 putative Zn2+ binding site [ion binding]; other site 397945011970 AsnC family; Region: AsnC_trans_reg; pfam01037 397945011971 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 397945011972 Putative serine esterase (DUF676); Region: DUF676; pfam05057 397945011973 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 397945011974 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 397945011975 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 397945011976 dimer interface [polypeptide binding]; other site 397945011977 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 397945011978 active site 397945011979 Fe binding site [ion binding]; other site 397945011980 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945011981 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 397945011982 cofactor binding site; other site 397945011983 metal binding site [ion binding]; metal-binding site 397945011984 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 397945011985 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 397945011986 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945011987 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 397945011988 acyl-activating enzyme (AAE) consensus motif; other site 397945011989 putative AMP binding site [chemical binding]; other site 397945011990 putative active site [active] 397945011991 putative CoA binding site [chemical binding]; other site 397945011992 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 397945011993 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 397945011994 ligand binding site [chemical binding]; other site 397945011995 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 397945011996 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 397945011997 Walker A/P-loop; other site 397945011998 ATP binding site [chemical binding]; other site 397945011999 Q-loop/lid; other site 397945012000 ABC transporter signature motif; other site 397945012001 Walker B; other site 397945012002 D-loop; other site 397945012003 H-loop/switch region; other site 397945012004 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 397945012005 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 397945012006 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 397945012007 TM-ABC transporter signature motif; other site 397945012008 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945012009 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945012010 DNA binding site [nucleotide binding] 397945012011 domain linker motif; other site 397945012012 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 397945012013 dimerization interface [polypeptide binding]; other site 397945012014 ligand binding site [chemical binding]; other site 397945012015 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 397945012016 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 397945012017 substrate binding site [chemical binding]; other site 397945012018 dimer interface [polypeptide binding]; other site 397945012019 ATP binding site [chemical binding]; other site 397945012020 D-ribose pyranase; Provisional; Region: PRK11797 397945012021 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 397945012022 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 397945012023 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945012024 catalytic residue [active] 397945012025 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 397945012026 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 397945012027 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 397945012028 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 397945012029 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945012030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945012031 metal binding site [ion binding]; metal-binding site 397945012032 active site 397945012033 I-site; other site 397945012034 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 397945012035 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945012036 putative C-terminal domain interface [polypeptide binding]; other site 397945012037 putative GSH binding site (G-site) [chemical binding]; other site 397945012038 putative dimer interface [polypeptide binding]; other site 397945012039 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 397945012040 putative dimer interface [polypeptide binding]; other site 397945012041 putative N-terminal domain interface [polypeptide binding]; other site 397945012042 putative substrate binding pocket (H-site) [chemical binding]; other site 397945012043 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 397945012044 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 397945012045 active site 397945012046 NTP binding site [chemical binding]; other site 397945012047 metal binding triad [ion binding]; metal-binding site 397945012048 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 397945012049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945012050 Zn2+ binding site [ion binding]; other site 397945012051 Mg2+ binding site [ion binding]; other site 397945012052 thioredoxin 2; Provisional; Region: PRK10996 397945012053 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 397945012054 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 397945012055 catalytic residues [active] 397945012056 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 397945012057 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 397945012058 active site 397945012059 motif I; other site 397945012060 motif II; other site 397945012061 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 397945012062 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 397945012063 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 397945012064 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 397945012065 active site 397945012066 homotetramer interface [polypeptide binding]; other site 397945012067 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 397945012068 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 397945012069 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 397945012070 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 397945012071 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 397945012072 active site 397945012073 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945012074 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 397945012075 acyl-activating enzyme (AAE) consensus motif; other site 397945012076 AMP binding site [chemical binding]; other site 397945012077 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945012078 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945012079 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 397945012080 active site 397945012081 metal binding site [ion binding]; metal-binding site 397945012082 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945012083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945012084 Coenzyme A binding pocket [chemical binding]; other site 397945012085 Bacterial DNA topoisomerase I DNA-binding domain; Region: TOP1Ac; smart00437 397945012086 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 397945012087 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 397945012088 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 397945012089 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 397945012090 inhibitor-cofactor binding pocket; inhibition site 397945012091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012092 catalytic residue [active] 397945012093 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 397945012094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012095 catalytic residue [active] 397945012096 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 397945012097 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945012098 substrate binding pocket [chemical binding]; other site 397945012099 membrane-bound complex binding site; other site 397945012100 hinge residues; other site 397945012101 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 397945012102 Uncharacterized conserved protein [Function unknown]; Region: COG1565 397945012103 short chain dehydrogenase; Provisional; Region: PRK09134 397945012104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012105 NAD(P) binding site [chemical binding]; other site 397945012106 active site 397945012107 Dihydroneopterin aldolase; Region: FolB; smart00905 397945012108 active site 397945012109 Protein of unknown function (DUF466); Region: DUF466; pfam04328 397945012110 carbon starvation protein A; Provisional; Region: PRK15015 397945012111 Carbon starvation protein CstA; Region: CstA; pfam02554 397945012112 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 397945012113 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945012114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012115 active site 397945012116 phosphorylation site [posttranslational modification] 397945012117 intermolecular recognition site; other site 397945012118 dimerization interface [polypeptide binding]; other site 397945012119 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 397945012120 DNA binding residues [nucleotide binding] 397945012121 dimerization interface [polypeptide binding]; other site 397945012122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 397945012123 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 397945012124 Histidine kinase; Region: HisKA_3; pfam07730 397945012125 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 397945012126 ATP binding site [chemical binding]; other site 397945012127 Mg2+ binding site [ion binding]; other site 397945012128 G-X-G motif; other site 397945012129 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 397945012130 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 397945012131 Ligand Binding Site [chemical binding]; other site 397945012132 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 397945012133 catalytic core [active] 397945012134 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 397945012135 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 397945012136 dimer interface [polypeptide binding]; other site 397945012137 active site 397945012138 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945012139 substrate binding site [chemical binding]; other site 397945012140 catalytic residue [active] 397945012141 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 397945012142 Phage Tail Collar Domain; Region: Collar; pfam07484 397945012143 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 397945012144 Phage Tail Collar Domain; Region: Collar; pfam07484 397945012145 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 397945012146 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 397945012147 Walker A motif; other site 397945012148 ATP binding site [chemical binding]; other site 397945012149 Walker B motif; other site 397945012150 arginine finger; other site 397945012151 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 397945012152 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 397945012153 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 397945012154 RuvA N terminal domain; Region: RuvA_N; pfam01330 397945012155 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 397945012156 PhoH-like protein; Region: PhoH; pfam02562 397945012157 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 397945012158 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 397945012159 putative active site [active] 397945012160 dimerization interface [polypeptide binding]; other site 397945012161 putative tRNAtyr binding site [nucleotide binding]; other site 397945012162 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 397945012163 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 397945012164 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 397945012165 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 397945012166 ATP binding site [chemical binding]; other site 397945012167 Mg++ binding site [ion binding]; other site 397945012168 motif III; other site 397945012169 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 397945012170 nucleotide binding region [chemical binding]; other site 397945012171 ATP-binding site [chemical binding]; other site 397945012172 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 397945012173 putative RNA binding site [nucleotide binding]; other site 397945012174 AMP nucleosidase; Provisional; Region: PRK08292 397945012175 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 397945012176 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 397945012177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945012178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945012179 metal binding site [ion binding]; metal-binding site 397945012180 active site 397945012181 I-site; other site 397945012182 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 397945012183 amidase catalytic site [active] 397945012184 Zn binding residues [ion binding]; other site 397945012185 substrate binding site [chemical binding]; other site 397945012186 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 397945012187 active site 397945012188 P-loop; other site 397945012189 phosphorylation site [posttranslational modification] 397945012190 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 397945012191 active site 397945012192 P-loop; other site 397945012193 phosphorylation site [posttranslational modification] 397945012194 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 397945012195 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 397945012196 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 397945012197 substrate binding site [chemical binding]; other site 397945012198 ATP binding site [chemical binding]; other site 397945012199 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 397945012200 active site 397945012201 phosphorylation site [posttranslational modification] 397945012202 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 397945012203 dimerization domain swap beta strand [polypeptide binding]; other site 397945012204 regulatory protein interface [polypeptide binding]; other site 397945012205 active site 397945012206 regulatory phosphorylation site [posttranslational modification]; other site 397945012207 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 397945012208 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 397945012209 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 397945012210 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 397945012211 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945012212 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945012213 DNA binding site [nucleotide binding] 397945012214 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 397945012215 putative dimerization interface [polypeptide binding]; other site 397945012216 putative ligand binding site [chemical binding]; other site 397945012217 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 397945012218 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 397945012219 TonB C terminal; Region: TonB_2; pfam13103 397945012220 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 397945012221 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 397945012222 nucleotide binding site [chemical binding]; other site 397945012223 putative NEF/HSP70 interaction site [polypeptide binding]; other site 397945012224 SBD interface [polypeptide binding]; other site 397945012225 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 397945012226 putative active site [active] 397945012227 putative catalytic triad [active] 397945012228 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 397945012229 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 397945012230 ATP-grasp domain; Region: ATP-grasp; pfam02222 397945012231 nodulation ABC transporter NodI; Provisional; Region: PRK13537 397945012232 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 397945012233 Walker A/P-loop; other site 397945012234 ATP binding site [chemical binding]; other site 397945012235 Q-loop/lid; other site 397945012236 ABC transporter signature motif; other site 397945012237 Walker B; other site 397945012238 D-loop; other site 397945012239 H-loop/switch region; other site 397945012240 ABC-2 type transporter; Region: ABC2_membrane; cl17235 397945012241 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 397945012242 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 397945012243 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 397945012244 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945012245 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 397945012246 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 397945012247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 397945012248 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945012249 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945012250 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945012251 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 397945012252 homotrimer interaction site [polypeptide binding]; other site 397945012253 putative active site [active] 397945012254 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 397945012255 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 397945012256 active site 397945012257 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 397945012258 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 397945012259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945012260 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 397945012261 Transcriptional regulators [Transcription]; Region: MarR; COG1846 397945012262 MarR family; Region: MarR; pfam01047 397945012263 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 397945012264 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945012265 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 397945012266 active site 397945012267 metal binding site [ion binding]; metal-binding site 397945012268 Diadenosine tetraphosphatase and related serine/threonine protein phosphatases [Signal transduction mechanisms]; Region: ApaH; COG0639 397945012269 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945012270 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945012271 active site 397945012272 ATP binding site [chemical binding]; other site 397945012273 substrate binding site [chemical binding]; other site 397945012274 activation loop (A-loop); other site 397945012275 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 397945012276 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 397945012277 serine/threonine protein kinase; Provisional; Region: PRK11768 397945012278 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945012279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012280 active site 397945012281 phosphorylation site [posttranslational modification] 397945012282 intermolecular recognition site; other site 397945012283 dimerization interface [polypeptide binding]; other site 397945012284 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 397945012285 DNA binding site [nucleotide binding] 397945012286 Domain of unknown function DUF11; Region: DUF11; pfam01345 397945012287 Domain of unknown function DUF11; Region: DUF11; pfam01345 397945012288 Domain of unknown function DUF11; Region: DUF11; pfam01345 397945012289 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945012290 HAMP domain; Region: HAMP; pfam00672 397945012291 dimerization interface [polypeptide binding]; other site 397945012292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945012293 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 397945012294 dimer interface [polypeptide binding]; other site 397945012295 phosphorylation site [posttranslational modification] 397945012296 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 397945012297 ATP binding site [chemical binding]; other site 397945012298 Mg2+ binding site [ion binding]; other site 397945012299 G-X-G motif; other site 397945012300 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012302 active site 397945012303 phosphorylation site [posttranslational modification] 397945012304 intermolecular recognition site; other site 397945012305 dimerization interface [polypeptide binding]; other site 397945012306 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 397945012307 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 397945012308 PAAR motif; Region: PAAR_motif; cl15808 397945012309 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945012310 RHS Repeat; Region: RHS_repeat; pfam05593 397945012311 RHS Repeat; Region: RHS_repeat; pfam05593 397945012312 RHS Repeat; Region: RHS_repeat; cl11982 397945012313 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945012314 RHS Repeat; Region: RHS_repeat; pfam05593 397945012315 RHS protein; Region: RHS; pfam03527 397945012316 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945012317 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 397945012318 heat shock protein 90; Provisional; Region: PRK05218 397945012319 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 397945012320 ATP binding site [chemical binding]; other site 397945012321 Mg2+ binding site [ion binding]; other site 397945012322 G-X-G motif; other site 397945012323 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 397945012324 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945012325 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 397945012326 RNA binding surface [nucleotide binding]; other site 397945012327 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 397945012328 active site 397945012329 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 397945012330 dimerization interface [polypeptide binding]; other site 397945012331 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945012332 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945012333 metal binding site [ion binding]; metal-binding site 397945012334 active site 397945012335 I-site; other site 397945012336 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 397945012337 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 397945012338 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 397945012339 dimerization interface [polypeptide binding]; other site 397945012340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945012341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012342 dimer interface [polypeptide binding]; other site 397945012343 putative CheW interface [polypeptide binding]; other site 397945012344 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945012345 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 397945012346 ligand binding site [chemical binding]; other site 397945012347 flexible hinge region; other site 397945012348 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 397945012349 non-specific DNA interactions [nucleotide binding]; other site 397945012350 DNA binding site [nucleotide binding] 397945012351 sequence specific DNA binding site [nucleotide binding]; other site 397945012352 putative cAMP binding site [chemical binding]; other site 397945012353 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 397945012354 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 397945012355 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 397945012356 putative metal binding site [ion binding]; other site 397945012357 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 397945012358 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 397945012359 dimer interface [polypeptide binding]; other site 397945012360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012361 catalytic residue [active] 397945012362 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 397945012363 putative catalytic site [active] 397945012364 putative metal binding site [ion binding]; other site 397945012365 putative phosphate binding site [ion binding]; other site 397945012366 cardiolipin synthase 2; Provisional; Region: PRK11263 397945012367 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 397945012368 putative active site [active] 397945012369 catalytic site [active] 397945012370 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945012371 putative active site [active] 397945012372 catalytic site [active] 397945012373 Predicted integral membrane protein [Function unknown]; Region: COG0392 397945012374 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 397945012375 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945012376 HAMP domain; Region: HAMP; pfam00672 397945012377 dimerization interface [polypeptide binding]; other site 397945012378 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945012379 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012380 dimer interface [polypeptide binding]; other site 397945012381 putative CheW interface [polypeptide binding]; other site 397945012382 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945012383 aldolase II superfamily protein; Provisional; Region: PRK07044 397945012384 intersubunit interface [polypeptide binding]; other site 397945012385 active site 397945012386 Zn2+ binding site [ion binding]; other site 397945012387 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 397945012388 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 397945012389 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 397945012390 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 397945012391 Ligand binding site [chemical binding]; other site 397945012392 Electron transfer flavoprotein domain; Region: ETF; pfam01012 397945012393 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945012394 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945012395 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945012396 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945012397 enoyl-CoA hydratase; Provisional; Region: PRK07511 397945012398 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 397945012399 substrate binding site [chemical binding]; other site 397945012400 oxyanion hole (OAH) forming residues; other site 397945012401 trimer interface [polypeptide binding]; other site 397945012402 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 397945012403 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 397945012404 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 397945012405 active site 397945012406 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 397945012407 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945012408 active site 397945012409 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 397945012410 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 397945012411 substrate binding site [chemical binding]; other site 397945012412 oxyanion hole (OAH) forming residues; other site 397945012413 trimer interface [polypeptide binding]; other site 397945012414 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 397945012415 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945012416 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945012417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945012418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945012419 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 397945012420 putative effector binding pocket; other site 397945012421 dimerization interface [polypeptide binding]; other site 397945012422 heat shock protein HtpX; Provisional; Region: PRK05457 397945012423 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 397945012424 Uncharacterized conserved protein [Function unknown]; Region: COG1432 397945012425 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 397945012426 putative metal binding site [ion binding]; other site 397945012427 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 397945012428 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 397945012429 active site 397945012430 substrate binding pocket [chemical binding]; other site 397945012431 dimer interface [polypeptide binding]; other site 397945012432 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 397945012433 dimerization interface [polypeptide binding]; other site 397945012434 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 397945012435 dimer interface [polypeptide binding]; other site 397945012436 phosphorylation site [posttranslational modification] 397945012437 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 397945012438 ATP binding site [chemical binding]; other site 397945012439 Mg2+ binding site [ion binding]; other site 397945012440 G-X-G motif; other site 397945012441 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945012442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012443 active site 397945012444 phosphorylation site [posttranslational modification] 397945012445 intermolecular recognition site; other site 397945012446 dimerization interface [polypeptide binding]; other site 397945012447 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 397945012448 DNA binding site [nucleotide binding] 397945012449 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945012450 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 397945012451 DevC protein; Region: devC; TIGR01185 397945012452 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945012453 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 397945012454 Walker A/P-loop; other site 397945012455 ATP binding site [chemical binding]; other site 397945012456 Q-loop/lid; other site 397945012457 ABC transporter signature motif; other site 397945012458 Walker B; other site 397945012459 D-loop; other site 397945012460 H-loop/switch region; other site 397945012461 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 397945012462 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945012463 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 397945012464 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 397945012465 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945012466 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 397945012467 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 397945012468 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945012469 catalytic residue [active] 397945012470 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 397945012471 active site 397945012472 metal binding site [ion binding]; metal-binding site 397945012473 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 397945012474 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 397945012475 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 397945012476 inhibitor-cofactor binding pocket; inhibition site 397945012477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012478 catalytic residue [active] 397945012479 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 397945012480 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945012481 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945012482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945012483 Walker A/P-loop; other site 397945012484 ATP binding site [chemical binding]; other site 397945012485 Q-loop/lid; other site 397945012486 ABC transporter signature motif; other site 397945012487 Walker B; other site 397945012488 D-loop; other site 397945012489 H-loop/switch region; other site 397945012490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945012491 Walker A/P-loop; other site 397945012492 ATP binding site [chemical binding]; other site 397945012493 Q-loop/lid; other site 397945012494 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945012495 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 397945012496 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945012497 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 397945012498 putative ligand binding site [chemical binding]; other site 397945012499 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 397945012500 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945012501 trimer interface [polypeptide binding]; other site 397945012502 eyelet of channel; other site 397945012503 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 397945012504 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945012505 trimer interface [polypeptide binding]; other site 397945012506 eyelet of channel; other site 397945012507 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 397945012508 putative substrate translocation pore; other site 397945012509 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 397945012510 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 397945012511 putative catalytic residue [active] 397945012512 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 397945012513 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 397945012514 putative deacylase active site [active] 397945012515 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 397945012516 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 397945012517 active site 397945012518 catalytic residues [active] 397945012519 metal binding site [ion binding]; metal-binding site 397945012520 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 397945012521 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 397945012522 putative ligand binding site [chemical binding]; other site 397945012523 NAD binding site [chemical binding]; other site 397945012524 dimerization interface [polypeptide binding]; other site 397945012525 catalytic site [active] 397945012526 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 397945012527 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945012528 ATP-grasp domain; Region: ATP-grasp_4; cl17255 397945012529 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 397945012530 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 397945012531 carboxyltransferase (CT) interaction site; other site 397945012532 biotinylation site [posttranslational modification]; other site 397945012533 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 397945012534 enoyl-CoA hydratase; Provisional; Region: PRK05995 397945012535 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 397945012536 substrate binding site [chemical binding]; other site 397945012537 oxyanion hole (OAH) forming residues; other site 397945012538 trimer interface [polypeptide binding]; other site 397945012539 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 397945012540 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 397945012541 AMP-binding domain protein; Validated; Region: PRK08315 397945012542 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945012543 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 397945012544 acyl-activating enzyme (AAE) consensus motif; other site 397945012545 putative AMP binding site [chemical binding]; other site 397945012546 putative active site [active] 397945012547 putative CoA binding site [chemical binding]; other site 397945012548 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 397945012549 Helix-turn-helix domain; Region: HTH_18; pfam12833 397945012550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945012551 Winged helix-turn helix; Region: HTH_29; pfam13551 397945012552 Homeodomain-like domain; Region: HTH_32; pfam13565 397945012553 Integrase core domain; Region: rve; pfam00665 397945012554 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945012555 Integrase core domain; Region: rve_3; pfam13683 397945012556 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 397945012557 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 397945012558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945012559 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 397945012560 dimer interface [polypeptide binding]; other site 397945012561 phosphorylation site [posttranslational modification] 397945012562 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 397945012563 ATP binding site [chemical binding]; other site 397945012564 Mg2+ binding site [ion binding]; other site 397945012565 G-X-G motif; other site 397945012566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012567 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012568 active site 397945012569 phosphorylation site [posttranslational modification] 397945012570 intermolecular recognition site; other site 397945012571 dimerization interface [polypeptide binding]; other site 397945012572 hypothetical protein; Provisional; Region: PRK01842 397945012573 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 397945012574 Predicted membrane protein [Function unknown]; Region: COG2323 397945012575 (alpha)-aspartyl dipeptidase; Validated; Region: PRK05282 397945012576 conserved cys residue [active] 397945012577 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945012578 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945012579 active site 397945012580 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 397945012581 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 397945012582 C factor cell-cell signaling protein; Provisional; Region: PRK09009 397945012583 NADP binding site [chemical binding]; other site 397945012584 homodimer interface [polypeptide binding]; other site 397945012585 active site 397945012586 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 397945012587 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 397945012588 dimer interface [polypeptide binding]; other site 397945012589 active site 397945012590 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 397945012591 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 397945012592 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 397945012593 active site clefts [active] 397945012594 zinc binding site [ion binding]; other site 397945012595 dimer interface [polypeptide binding]; other site 397945012596 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 397945012597 isovaleryl-CoA dehydrogenase; Region: PLN02519 397945012598 substrate binding site [chemical binding]; other site 397945012599 FAD binding site [chemical binding]; other site 397945012600 catalytic base [active] 397945012601 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 397945012602 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 397945012603 DNA binding residues [nucleotide binding] 397945012604 putative dimer interface [polypeptide binding]; other site 397945012605 ABC transporter ATPase component; Reviewed; Region: PRK11147 397945012606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945012607 Walker A/P-loop; other site 397945012608 ATP binding site [chemical binding]; other site 397945012609 Q-loop/lid; other site 397945012610 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945012611 ABC transporter signature motif; other site 397945012612 Walker B; other site 397945012613 ABC transporter; Region: ABC_tran_2; pfam12848 397945012614 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 397945012615 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 397945012616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012617 active site 397945012618 phosphorylation site [posttranslational modification] 397945012619 intermolecular recognition site; other site 397945012620 dimerization interface [polypeptide binding]; other site 397945012621 CheB methylesterase; Region: CheB_methylest; pfam01339 397945012622 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 397945012623 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 397945012624 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945012625 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 397945012626 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 397945012627 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 397945012628 putative binding surface; other site 397945012629 active site 397945012630 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 397945012631 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 397945012632 ATP binding site [chemical binding]; other site 397945012633 Mg2+ binding site [ion binding]; other site 397945012634 G-X-G motif; other site 397945012635 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 397945012636 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012638 active site 397945012639 phosphorylation site [posttranslational modification] 397945012640 intermolecular recognition site; other site 397945012641 dimerization interface [polypeptide binding]; other site 397945012642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012643 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012644 active site 397945012645 phosphorylation site [posttranslational modification] 397945012646 intermolecular recognition site; other site 397945012647 dimerization interface [polypeptide binding]; other site 397945012648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 397945012649 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 397945012650 ATP binding site [chemical binding]; other site 397945012651 Mg2+ binding site [ion binding]; other site 397945012652 G-X-G motif; other site 397945012653 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945012654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012655 active site 397945012656 phosphorylation site [posttranslational modification] 397945012657 intermolecular recognition site; other site 397945012658 dimerization interface [polypeptide binding]; other site 397945012659 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 397945012660 DNA binding residues [nucleotide binding] 397945012661 dimerization interface [polypeptide binding]; other site 397945012662 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 397945012663 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 397945012664 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 397945012665 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 397945012666 flagellar motor switch protein; Validated; Region: fliN; PRK05698 397945012667 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 397945012668 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 397945012669 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 397945012670 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 397945012671 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 397945012672 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 397945012673 Flagellar FliJ protein; Region: FliJ; pfam02050 397945012674 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 397945012675 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 397945012676 Walker A motif/ATP binding site; other site 397945012677 Walker B motif; other site 397945012678 Flagellar assembly protein FliH; Region: FliH; pfam02108 397945012679 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 397945012680 MgtE intracellular N domain; Region: MgtE_N; cl15244 397945012681 FliG C-terminal domain; Region: FliG_C; pfam01706 397945012682 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 397945012683 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 397945012684 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 397945012685 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 397945012686 Flagellar protein FliT; Region: FliT; pfam05400 397945012687 Flagellar protein FliS; Region: FliS; cl00654 397945012688 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 397945012689 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 397945012690 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 397945012691 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 397945012692 flagellin; Provisional; Region: PRK12806 397945012693 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 397945012694 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 397945012695 flagellin; Provisional; Region: PRK12806 397945012696 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 397945012697 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 397945012698 WbqC-like protein family; Region: WbqC; pfam08889 397945012699 Methyltransferase domain; Region: Methyltransf_12; pfam08242 397945012700 S-adenosylmethionine binding site [chemical binding]; other site 397945012701 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 397945012702 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945012703 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 397945012704 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 397945012705 inhibitor-cofactor binding pocket; inhibition site 397945012706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012707 catalytic residue [active] 397945012708 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 397945012709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945012710 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 397945012711 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 397945012712 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 397945012713 Probable Catalytic site; other site 397945012714 metal-binding site 397945012715 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945012716 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 397945012717 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 397945012718 flagellar motor protein MotA; Validated; Region: PRK09110 397945012719 flagellar motor protein MotB; Validated; Region: motB; PRK09041 397945012720 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 397945012721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945012722 ligand binding site [chemical binding]; other site 397945012723 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 397945012724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012725 active site 397945012726 phosphorylation site [posttranslational modification] 397945012727 intermolecular recognition site; other site 397945012728 dimerization interface [polypeptide binding]; other site 397945012729 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 397945012730 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 397945012731 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 397945012732 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 397945012733 FHIPEP family; Region: FHIPEP; pfam00771 397945012734 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 397945012735 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 397945012736 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945012737 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 397945012738 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 397945012739 DNA binding residues [nucleotide binding] 397945012740 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 397945012741 SAF-like; Region: SAF_2; pfam13144 397945012742 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 397945012743 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 397945012744 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 397945012745 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 397945012746 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 397945012747 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 397945012748 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 397945012749 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 397945012750 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 397945012751 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 397945012752 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 397945012753 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 397945012754 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 397945012755 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 397945012756 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 397945012757 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 397945012758 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 397945012759 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 397945012760 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 397945012761 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 397945012762 Flagellar L-ring protein; Region: FlgH; pfam02107 397945012763 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 397945012764 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 397945012765 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 397945012766 Rod binding protein; Region: Rod-binding; cl01626 397945012767 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 397945012768 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 397945012769 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 397945012770 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 397945012771 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 397945012772 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 397945012773 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 397945012774 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 397945012775 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 397945012776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945012777 DNA-binding site [nucleotide binding]; DNA binding site 397945012778 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 397945012779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012780 homodimer interface [polypeptide binding]; other site 397945012781 catalytic residue [active] 397945012782 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 397945012783 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 397945012784 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 397945012785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012786 homodimer interface [polypeptide binding]; other site 397945012787 catalytic residue [active] 397945012788 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945012789 GST_N family, unknown subfamily 2; 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_2; cd03047 397945012790 putative C-terminal domain interface [polypeptide binding]; other site 397945012791 putative GSH binding site (G-site) [chemical binding]; other site 397945012792 putative dimer interface [polypeptide binding]; other site 397945012793 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 397945012794 putative N-terminal domain interface [polypeptide binding]; other site 397945012795 putative dimer interface [polypeptide binding]; other site 397945012796 putative substrate binding pocket (H-site) [chemical binding]; other site 397945012797 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 397945012798 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 397945012799 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 397945012800 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 397945012801 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 397945012802 tetramer interface [polypeptide binding]; other site 397945012803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012804 catalytic residue [active] 397945012805 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 397945012806 catalytic core [active] 397945012807 Creatinine amidohydrolase; Region: Creatininase; pfam02633 397945012808 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945012809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945012810 Integrase core domain; Region: rve; pfam00665 397945012811 Integrase core domain; Region: rve_3; pfam13683 397945012812 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945012813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012814 dimer interface [polypeptide binding]; other site 397945012815 putative CheW interface [polypeptide binding]; other site 397945012816 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945012817 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 397945012818 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945012819 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945012820 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 397945012821 N-terminal plug; other site 397945012822 ligand-binding site [chemical binding]; other site 397945012823 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 397945012824 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945012825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 397945012826 LysR family transcriptional regulator; Provisional; Region: PRK14997 397945012827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945012828 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 397945012829 putative effector binding pocket; other site 397945012830 dimerization interface [polypeptide binding]; other site 397945012831 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 397945012832 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 397945012833 putative NAD(P) binding site [chemical binding]; other site 397945012834 dimer interface [polypeptide binding]; other site 397945012835 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 397945012836 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 397945012837 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 397945012838 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 397945012839 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 397945012840 DsbD alpha interface [polypeptide binding]; other site 397945012841 catalytic residues [active] 397945012842 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945012843 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945012844 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; cl17904 397945012845 Uncharacterized conserved protein [Function unknown]; Region: COG1262 397945012846 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 397945012847 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 397945012848 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 397945012849 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 397945012850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945012851 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 397945012852 dimerization interface [polypeptide binding]; other site 397945012853 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 397945012854 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 397945012855 Sulfatase; Region: Sulfatase; pfam00884 397945012856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945012857 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945012858 MarR family; Region: MarR_2; cl17246 397945012859 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 397945012860 substrate binding site [chemical binding]; other site 397945012861 active site 397945012862 primosome assembly protein PriA; Validated; Region: PRK05580 397945012863 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 397945012864 ATP binding site [chemical binding]; other site 397945012865 putative Mg++ binding site [ion binding]; other site 397945012866 helicase superfamily c-terminal domain; Region: HELICc; smart00490 397945012867 Membrane transport protein; Region: Mem_trans; cl09117 397945012868 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 397945012869 Part of AAA domain; Region: AAA_19; pfam13245 397945012870 Family description; Region: UvrD_C_2; pfam13538 397945012871 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 397945012872 substrate binding site [chemical binding]; other site 397945012873 dimerization interface [polypeptide binding]; other site 397945012874 active site 397945012875 calcium binding site [ion binding]; other site 397945012876 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 397945012877 Ligand Binding Site [chemical binding]; other site 397945012878 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 397945012879 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 397945012880 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945012881 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 397945012882 putative GSH binding site (G-site) [chemical binding]; other site 397945012883 putative C-terminal domain interface [polypeptide binding]; other site 397945012884 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 397945012885 putative N-terminal domain interface [polypeptide binding]; other site 397945012886 putative dimer interface [polypeptide binding]; other site 397945012887 putative substrate binding pocket (H-site) [chemical binding]; other site 397945012888 short chain dehydrogenase; Provisional; Region: PRK06701 397945012889 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 397945012890 NAD binding site [chemical binding]; other site 397945012891 metal binding site [ion binding]; metal-binding site 397945012892 active site 397945012893 Double zinc ribbon; Region: DZR; pfam12773 397945012894 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 397945012895 yiaA/B two helix domain; Region: YiaAB; cl01759 397945012896 yiaA/B two helix domain; Region: YiaAB; cl01759 397945012897 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945012898 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 397945012899 putative DNA binding site [nucleotide binding]; other site 397945012900 putative Zn2+ binding site [ion binding]; other site 397945012901 AsnC family; Region: AsnC_trans_reg; pfam01037 397945012902 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 397945012903 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 397945012904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012905 catalytic residue [active] 397945012906 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945012907 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945012908 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945012909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012910 dimer interface [polypeptide binding]; other site 397945012911 putative CheW interface [polypeptide binding]; other site 397945012912 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 397945012913 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945012914 putative acyl-acceptor binding pocket; other site 397945012915 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 397945012916 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945012917 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 397945012918 Catalytic site [active] 397945012919 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 397945012920 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945012921 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945012922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945012923 Integrase core domain; Region: rve; pfam00665 397945012924 Integrase core domain; Region: rve_3; pfam13683 397945012925 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 397945012926 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 397945012927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 397945012928 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 397945012929 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 397945012930 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945012931 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 397945012932 hydroxyglutarate oxidase; Provisional; Region: PRK11728 397945012933 FIST N domain; Region: FIST; pfam08495 397945012934 FIST C domain; Region: FIST_C; pfam10442 397945012935 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; cl00257 397945012936 IHF dimer interface [polypeptide binding]; other site 397945012937 IHF - DNA interface [nucleotide binding]; other site 397945012938 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 397945012939 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 397945012940 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 397945012941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012942 NAD(P) binding site [chemical binding]; other site 397945012943 active site 397945012944 NMT1/THI5 like; Region: NMT1; pfam09084 397945012945 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 397945012946 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945012947 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 397945012948 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945012949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945012950 Walker A/P-loop; other site 397945012951 ATP binding site [chemical binding]; other site 397945012952 Q-loop/lid; other site 397945012953 ABC transporter signature motif; other site 397945012954 Walker B; other site 397945012955 D-loop; other site 397945012956 H-loop/switch region; other site 397945012957 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 397945012958 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 397945012959 putative catalytic cysteine [active] 397945012960 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 397945012961 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 397945012962 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 397945012963 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 397945012964 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 397945012965 non-specific DNA binding site [nucleotide binding]; other site 397945012966 salt bridge; other site 397945012967 sequence-specific DNA binding site [nucleotide binding]; other site 397945012968 HipA N-terminal domain; Region: Couple_hipA; pfam13657 397945012969 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 397945012970 HipA-like N-terminal domain; Region: HipA_N; pfam07805 397945012971 HipA-like C-terminal domain; Region: HipA_C; pfam07804 397945012972 HNH endonuclease; Region: HNH_2; pfam13391 397945012973 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 397945012974 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 397945012975 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 397945012976 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 397945012977 E-class dimer interface [polypeptide binding]; other site 397945012978 P-class dimer interface [polypeptide binding]; other site 397945012979 active site 397945012980 Cu2+ binding site [ion binding]; other site 397945012981 Zn2+ binding site [ion binding]; other site 397945012982 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 397945012983 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945012984 putative substrate translocation pore; other site 397945012985 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945012987 active site 397945012988 phosphorylation site [posttranslational modification] 397945012989 intermolecular recognition site; other site 397945012990 dimerization interface [polypeptide binding]; other site 397945012991 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 397945012992 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 397945012993 dimerization interface [polypeptide binding]; other site 397945012994 PAS domain; Region: PAS; smart00091 397945012995 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945012996 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 397945012997 dimer interface [polypeptide binding]; other site 397945012998 phosphorylation site [posttranslational modification] 397945012999 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 397945013000 ATP binding site [chemical binding]; other site 397945013001 Mg2+ binding site [ion binding]; other site 397945013002 G-X-G motif; other site 397945013003 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 397945013004 16S rRNA methyltransferase B; Provisional; Region: PRK10901 397945013005 NusB family; Region: NusB; pfam01029 397945013006 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 397945013007 S-adenosylmethionine binding site [chemical binding]; other site 397945013008 LemA family; Region: LemA; cl00742 397945013009 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 397945013010 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 397945013011 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 397945013012 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 397945013013 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 397945013014 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 397945013015 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 397945013016 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 397945013017 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 397945013018 DNA binding site [nucleotide binding] 397945013019 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 397945013020 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 397945013021 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 397945013022 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 397945013023 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 397945013024 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 397945013025 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 397945013026 RPB3 interaction site [polypeptide binding]; other site 397945013027 RPB1 interaction site [polypeptide binding]; other site 397945013028 RPB11 interaction site [polypeptide binding]; other site 397945013029 RPB10 interaction site [polypeptide binding]; other site 397945013030 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 397945013031 peripheral dimer interface [polypeptide binding]; other site 397945013032 core dimer interface [polypeptide binding]; other site 397945013033 L10 interface [polypeptide binding]; other site 397945013034 L11 interface [polypeptide binding]; other site 397945013035 putative EF-Tu interaction site [polypeptide binding]; other site 397945013036 putative EF-G interaction site [polypeptide binding]; other site 397945013037 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 397945013038 23S rRNA interface [nucleotide binding]; other site 397945013039 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 397945013040 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 397945013041 mRNA/rRNA interface [nucleotide binding]; other site 397945013042 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 397945013043 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 397945013044 23S rRNA interface [nucleotide binding]; other site 397945013045 L7/L12 interface [polypeptide binding]; other site 397945013046 putative thiostrepton binding site; other site 397945013047 L25 interface [polypeptide binding]; other site 397945013048 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 397945013049 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 397945013050 putative homodimer interface [polypeptide binding]; other site 397945013051 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 397945013052 heterodimer interface [polypeptide binding]; other site 397945013053 homodimer interface [polypeptide binding]; other site 397945013054 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 397945013055 elongation factor Tu; Reviewed; Region: PRK00049 397945013056 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 397945013057 G1 box; other site 397945013058 GEF interaction site [polypeptide binding]; other site 397945013059 GTP/Mg2+ binding site [chemical binding]; other site 397945013060 Switch I region; other site 397945013061 G2 box; other site 397945013062 G3 box; other site 397945013063 Switch II region; other site 397945013064 G4 box; other site 397945013065 G5 box; other site 397945013066 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 397945013067 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 397945013068 Antibiotic Binding Site [chemical binding]; other site 397945013069 glutathione synthetase; Provisional; Region: PRK05246 397945013070 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 397945013071 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 397945013072 Benzoate membrane transport protein; Region: BenE; pfam03594 397945013073 benzoate transporter; Region: benE; TIGR00843 397945013074 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 397945013075 potassium uptake protein; Region: kup; TIGR00794 397945013076 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 397945013077 Glutamate-cysteine ligase; Region: GshA; pfam08886 397945013078 Cation transport protein; Region: TrkH; cl17365 397945013079 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 397945013080 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 397945013081 TrkA-N domain; Region: TrkA_N; pfam02254 397945013082 TrkA-C domain; Region: TrkA_C; pfam02080 397945013083 TrkA-N domain; Region: TrkA_N; pfam02254 397945013084 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 397945013085 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 397945013086 putative catalytic cysteine [active] 397945013087 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 397945013088 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 397945013089 Lipopolysaccharide-assembly; Region: LptE; cl01125 397945013090 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 397945013091 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 397945013092 HIGH motif; other site 397945013093 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 397945013094 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945013095 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945013096 active site 397945013097 KMSKS motif; other site 397945013098 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 397945013099 tRNA binding surface [nucleotide binding]; other site 397945013100 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945013101 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 397945013102 Catalytic site [active] 397945013103 PAS domain; Region: PAS_9; pfam13426 397945013104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945013105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013106 metal binding site [ion binding]; metal-binding site 397945013107 active site 397945013108 I-site; other site 397945013109 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 397945013110 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 397945013111 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 397945013112 dihydrodipicolinate reductase; Provisional; Region: PRK00048 397945013113 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 397945013114 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 397945013115 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 397945013116 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 397945013117 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 397945013118 metal binding site 2 [ion binding]; metal-binding site 397945013119 putative DNA binding helix; other site 397945013120 metal binding site 1 [ion binding]; metal-binding site 397945013121 dimer interface [polypeptide binding]; other site 397945013122 structural Zn2+ binding site [ion binding]; other site 397945013123 HPr kinase/phosphorylase; Provisional; Region: PRK05428 397945013124 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 397945013125 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 397945013126 Hpr binding site; other site 397945013127 active site 397945013128 homohexamer subunit interaction site [polypeptide binding]; other site 397945013129 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 397945013130 active site 397945013131 phosphorylation site [posttranslational modification] 397945013132 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 397945013133 30S subunit binding site; other site 397945013134 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 397945013135 ATP binding site [chemical binding]; other site 397945013136 active site 397945013137 substrate binding site [chemical binding]; other site 397945013138 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 397945013139 META domain; Region: META; pfam03724 397945013140 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 397945013141 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 397945013142 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 397945013143 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 397945013144 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 397945013145 NAD binding site [chemical binding]; other site 397945013146 ATP-grasp domain; Region: ATP-grasp; pfam02222 397945013147 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 397945013148 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 397945013149 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 397945013150 active site 397945013151 catalytic triad [active] 397945013152 oxyanion hole [active] 397945013153 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 397945013154 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 397945013155 active site 397945013156 catalytic triad [active] 397945013157 oxyanion hole [active] 397945013158 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 397945013159 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 397945013160 Glycoprotease family; Region: Peptidase_M22; pfam00814 397945013161 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 397945013162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945013163 Coenzyme A binding pocket [chemical binding]; other site 397945013164 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 397945013165 active site 397945013166 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 397945013167 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 397945013168 Cl binding site [ion binding]; other site 397945013169 oligomer interface [polypeptide binding]; other site 397945013170 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 397945013171 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 397945013172 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 397945013173 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 397945013174 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 397945013175 acyl-activating enzyme (AAE) consensus motif; other site 397945013176 putative AMP binding site [chemical binding]; other site 397945013177 putative active site [active] 397945013178 putative CoA binding site [chemical binding]; other site 397945013179 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 397945013180 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 397945013181 intersubunit interface [polypeptide binding]; other site 397945013182 active site 397945013183 zinc binding site [ion binding]; other site 397945013184 Na+ binding site [ion binding]; other site 397945013185 sensor protein QseC; Provisional; Region: PRK10337 397945013186 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 397945013187 dimer interface [polypeptide binding]; other site 397945013188 phosphorylation site [posttranslational modification] 397945013189 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 397945013190 Mg2+ binding site [ion binding]; other site 397945013191 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945013192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945013193 active site 397945013194 phosphorylation site [posttranslational modification] 397945013195 intermolecular recognition site; other site 397945013196 dimerization interface [polypeptide binding]; other site 397945013197 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 397945013198 DNA binding site [nucleotide binding] 397945013199 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 397945013200 active site 397945013201 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 397945013202 active site 397945013203 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 397945013204 pyruvate kinase; Provisional; Region: PRK05826 397945013205 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 397945013206 domain interfaces; other site 397945013207 active site 397945013208 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 397945013209 proline aminopeptidase P II; Provisional; Region: PRK10879 397945013210 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 397945013211 active site 397945013212 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 397945013213 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 397945013214 Substrate binding site; other site 397945013215 metal-binding site 397945013216 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 397945013217 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 397945013218 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 397945013219 TPP-binding site [chemical binding]; other site 397945013220 dimer interface [polypeptide binding]; other site 397945013221 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 397945013222 PYR/PP interface [polypeptide binding]; other site 397945013223 dimer interface [polypeptide binding]; other site 397945013224 TPP binding site [chemical binding]; other site 397945013225 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 397945013226 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 397945013227 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 397945013228 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 397945013229 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 397945013230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945013231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945013232 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 397945013233 dimerization interface [polypeptide binding]; other site 397945013234 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 397945013235 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 397945013236 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 397945013237 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945013238 ligand binding site [chemical binding]; other site 397945013239 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 397945013240 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 397945013241 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 397945013242 FeS/SAM binding site; other site 397945013243 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 397945013244 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; cl00250 397945013245 30S subunit binding site; other site 397945013246 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 397945013247 Peptidase C26; Region: Peptidase_C26; pfam07722 397945013248 catalytic triad [active] 397945013249 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 397945013250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 397945013251 Integrase core domain; Region: rve; pfam00665 397945013252 Integrase core domain; Region: rve_3; pfam13683 397945013253 Spore Coat Protein U domain; Region: SCPU; pfam05229 397945013254 Spore Coat Protein U domain; Region: SCPU; pfam05229 397945013255 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 397945013256 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 397945013257 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 397945013258 PapC N-terminal domain; Region: PapC_N; pfam13954 397945013259 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 397945013260 PapC C-terminal domain; Region: PapC_C; pfam13953 397945013261 Spore Coat Protein U domain; Region: SCPU; cl02253 397945013262 Spore Coat Protein U domain; Region: SCPU; pfam05229 397945013263 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 397945013264 Pirin-related protein [General function prediction only]; Region: COG1741 397945013265 Pirin; Region: Pirin; pfam02678 397945013266 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 397945013267 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 397945013268 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; cl15777 397945013269 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 397945013270 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 397945013271 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945013272 Sulfatase; Region: Sulfatase; cl17466 397945013273 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 397945013274 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 397945013275 putative NAD(P) binding site [chemical binding]; other site 397945013276 active site 397945013277 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 397945013278 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945013279 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 397945013280 dimer interface [polypeptide binding]; other site 397945013281 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 397945013282 WHG domain; Region: WHG; pfam13305 397945013283 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 397945013284 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945013285 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 397945013286 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 397945013287 Nuclease-related domain; Region: NERD; pfam08378 397945013288 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945013289 Family description; Region: UvrD_C_2; pfam13538 397945013290 Methyltransferase domain; Region: Methyltransf_23; pfam13489 397945013291 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 397945013292 S-adenosylmethionine binding site [chemical binding]; other site 397945013293 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945013294 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 397945013295 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945013296 RDD family; Region: RDD; pfam06271 397945013297 Fic family protein [Function unknown]; Region: COG3177 397945013298 Fic/DOC family; Region: Fic; pfam02661 397945013299 DNA topoisomerase III; Validated; Region: PRK08173 397945013300 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 397945013301 active site 397945013302 putative interdomain interaction site [polypeptide binding]; other site 397945013303 putative metal-binding site [ion binding]; other site 397945013304 putative nucleotide binding site [chemical binding]; other site 397945013305 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 397945013306 domain I; other site 397945013307 DNA binding groove [nucleotide binding] 397945013308 phosphate binding site [ion binding]; other site 397945013309 domain II; other site 397945013310 domain III; other site 397945013311 nucleotide binding site [chemical binding]; other site 397945013312 catalytic site [active] 397945013313 domain IV; other site 397945013314 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 397945013315 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 397945013316 SWI complex, BAF60b domains; Region: SWIB; smart00151 397945013317 Proteins containing SET domain [General function prediction only]; Region: COG2940 397945013318 SET domain; Region: SET; pfam00856 397945013319 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 397945013320 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 397945013321 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 397945013322 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 397945013323 Leucine rich repeat; Region: LRR_8; pfam13855 397945013324 Leucine rich repeat; Region: LRR_8; pfam13855 397945013325 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 397945013326 Leucine rich repeat; Region: LRR_8; pfam13855 397945013327 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 397945013328 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 397945013329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945013330 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945013331 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945013332 dimerization interface [polypeptide binding]; other site 397945013333 substrate binding pocket [chemical binding]; other site 397945013334 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945013335 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 397945013336 dimer interface [polypeptide binding]; other site 397945013337 phosphorylation site [posttranslational modification] 397945013338 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 397945013339 ATP binding site [chemical binding]; other site 397945013340 Mg2+ binding site [ion binding]; other site 397945013341 G-X-G motif; other site 397945013342 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945013343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945013344 active site 397945013345 phosphorylation site [posttranslational modification] 397945013346 intermolecular recognition site; other site 397945013347 dimerization interface [polypeptide binding]; other site 397945013348 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 397945013349 DNA binding site [nucleotide binding] 397945013350 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 397945013351 hexamer interface [polypeptide binding]; other site 397945013352 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 397945013353 Walker A motif; other site 397945013354 ATP binding site [chemical binding]; other site 397945013355 Walker B motif; other site 397945013356 RecX family; Region: RecX; cl00936 397945013357 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 397945013358 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 397945013359 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 397945013360 Protein export membrane protein; Region: SecD_SecF; pfam02355 397945013361 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 397945013362 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 397945013363 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 397945013364 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 397945013365 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 397945013366 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 397945013367 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 397945013368 dimer interface [polypeptide binding]; other site 397945013369 PYR/PP interface [polypeptide binding]; other site 397945013370 TPP binding site [chemical binding]; other site 397945013371 substrate binding site [chemical binding]; other site 397945013372 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 397945013373 TPP-binding site; other site 397945013374 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 397945013375 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945013376 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 397945013377 putative DNA binding site [nucleotide binding]; other site 397945013378 putative Zn2+ binding site [ion binding]; other site 397945013379 AsnC family; Region: AsnC_trans_reg; pfam01037 397945013380 Transmembrane secretion effector; Region: MFS_3; pfam05977 397945013381 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 397945013382 putative substrate translocation pore; other site 397945013383 MltA specific insert domain; Region: MltA; smart00925 397945013384 3D domain; Region: 3D; pfam06725 397945013385 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 397945013386 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945013387 ligand binding site [chemical binding]; other site 397945013388 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 397945013389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945013390 active site 397945013391 phosphorylation site [posttranslational modification] 397945013392 intermolecular recognition site; other site 397945013393 dimerization interface [polypeptide binding]; other site 397945013394 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 397945013395 DNA binding residues [nucleotide binding] 397945013396 dimerization interface [polypeptide binding]; other site 397945013397 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945013398 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 397945013399 putative active site [active] 397945013400 heme pocket [chemical binding]; other site 397945013401 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 397945013402 dimer interface [polypeptide binding]; other site 397945013403 phosphorylation site [posttranslational modification] 397945013404 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 397945013405 ATP binding site [chemical binding]; other site 397945013406 Mg2+ binding site [ion binding]; other site 397945013407 G-X-G motif; other site 397945013408 nitrilase; Region: PLN02798 397945013409 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 397945013410 putative active site [active] 397945013411 catalytic triad [active] 397945013412 dimer interface [polypeptide binding]; other site 397945013413 TIGR02099 family protein; Region: TIGR02099 397945013414 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 397945013415 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 397945013416 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 397945013417 metal binding triad; other site 397945013418 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 397945013419 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 397945013420 metal binding triad; other site 397945013421 Condensation domain; Region: Condensation; pfam00668 397945013422 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 397945013423 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 397945013424 acyl-activating enzyme (AAE) consensus motif; other site 397945013425 AMP binding site [chemical binding]; other site 397945013426 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 397945013427 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 397945013428 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 397945013429 putative NAD(P) binding site [chemical binding]; other site 397945013430 active site 397945013431 putative substrate binding site [chemical binding]; other site 397945013432 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 397945013433 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 397945013434 active site 397945013435 TDP-binding site; other site 397945013436 acceptor substrate-binding pocket; other site 397945013437 homodimer interface [polypeptide binding]; other site 397945013438 MbtH-like protein; Region: MbtH; pfam03621 397945013439 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 397945013440 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945013441 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945013442 HlyD family secretion protein; Region: HlyD_3; pfam13437 397945013443 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 397945013444 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 397945013445 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 397945013446 catalytic residues [active] 397945013447 dimer interface [polypeptide binding]; other site 397945013448 putative glutathione S-transferase; Provisional; Region: PRK10357 397945013449 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 397945013450 putative C-terminal domain interface [polypeptide binding]; other site 397945013451 putative GSH binding site (G-site) [chemical binding]; other site 397945013452 putative dimer interface [polypeptide binding]; other site 397945013453 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 397945013454 dimer interface [polypeptide binding]; other site 397945013455 N-terminal domain interface [polypeptide binding]; other site 397945013456 putative substrate binding pocket (H-site) [chemical binding]; other site 397945013457 adenylosuccinate lyase; Provisional; Region: PRK09285 397945013458 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 397945013459 tetramer interface [polypeptide binding]; other site 397945013460 active site 397945013461 YaeQ protein; Region: YaeQ; pfam07152 397945013462 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 397945013463 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 397945013464 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 397945013465 Predicted membrane protein [Function unknown]; Region: COG1950 397945013466 Peptidase family M48; Region: Peptidase_M48; cl12018 397945013467 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 397945013468 trimer interface [polypeptide binding]; other site 397945013469 dimer interface [polypeptide binding]; other site 397945013470 putative active site [active] 397945013471 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 397945013472 O-Antigen ligase; Region: Wzy_C; pfam04932 397945013473 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 397945013474 Pilin (bacterial filament); Region: Pilin; pfam00114 397945013475 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945013476 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 397945013477 phosphopeptide binding site; other site 397945013478 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 397945013479 active site 397945013480 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 397945013481 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 397945013482 CoA binding domain; Region: CoA_binding; smart00881 397945013483 CoA-ligase; Region: Ligase_CoA; pfam00549 397945013484 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 397945013485 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 397945013486 CoA-ligase; Region: Ligase_CoA; pfam00549 397945013487 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 397945013488 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 397945013489 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 397945013490 DNA protecting protein DprA; Region: dprA; TIGR00732 397945013491 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 397945013492 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 397945013493 active site 397945013494 catalytic residues [active] 397945013495 metal binding site [ion binding]; metal-binding site 397945013496 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 397945013497 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 397945013498 putative active site [active] 397945013499 substrate binding site [chemical binding]; other site 397945013500 putative cosubstrate binding site; other site 397945013501 catalytic site [active] 397945013502 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 397945013503 substrate binding site [chemical binding]; other site 397945013504 AzlC protein; Region: AzlC; pfam03591 397945013505 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 397945013506 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 397945013507 Phosphoglycerate kinase; Region: PGK; pfam00162 397945013508 substrate binding site [chemical binding]; other site 397945013509 hinge regions; other site 397945013510 ADP binding site [chemical binding]; other site 397945013511 catalytic site [active] 397945013512 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 397945013513 substrate binding site [chemical binding]; other site 397945013514 EamA-like transporter family; Region: EamA; pfam00892 397945013515 EamA-like transporter family; Region: EamA; pfam00892 397945013516 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 397945013517 active site 397945013518 dimer interface [polypeptide binding]; other site 397945013519 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 397945013520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945013521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945013522 LysR substrate binding domain; Region: LysR_substrate; pfam03466 397945013523 dimerization interface [polypeptide binding]; other site 397945013524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945013525 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 397945013526 active site 397945013527 Zn binding site [ion binding]; other site 397945013528 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 397945013529 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 397945013530 EamA-like transporter family; Region: EamA; pfam00892 397945013531 EamA-like transporter family; Region: EamA; pfam00892 397945013532 Nitrate and nitrite sensing; Region: NIT; pfam08376 397945013533 HAMP domain; Region: HAMP; pfam00672 397945013534 dimerization interface [polypeptide binding]; other site 397945013535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945013536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945013537 dimer interface [polypeptide binding]; other site 397945013538 putative CheW interface [polypeptide binding]; other site 397945013539 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 397945013540 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 397945013541 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 397945013542 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945013543 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 397945013544 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 397945013545 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 397945013546 ligand-binding site [chemical binding]; other site 397945013547 Ubiquitin homologues; Region: UBQ; smart00213 397945013548 Ubiquitin; Region: Ubiquitin; cd01803 397945013549 Ubq - CUE interaction site; other site 397945013550 Ubq - E2 interaction site; other site 397945013551 Ubq - UCH interaction site; other site 397945013552 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 397945013553 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945013554 putative substrate translocation pore; other site 397945013555 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 397945013556 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 397945013557 putative ion selectivity filter; other site 397945013558 putative pore gating glutamate residue; other site 397945013559 putative H+/Cl- coupling transport residue; other site 397945013560 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 397945013561 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 397945013562 dimer interface [polypeptide binding]; other site 397945013563 ssDNA binding site [nucleotide binding]; other site 397945013564 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945013565 Predicted transporter component [General function prediction only]; Region: COG2391 397945013566 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 397945013567 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 397945013568 putative DNA binding site [nucleotide binding]; other site 397945013569 dimerization interface [polypeptide binding]; other site 397945013570 putative Zn2+ binding site [ion binding]; other site 397945013571 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 397945013572 PAS fold; Region: PAS_7; pfam12860 397945013573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945013574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013575 metal binding site [ion binding]; metal-binding site 397945013576 active site 397945013577 I-site; other site 397945013578 L-lactate permease; Region: Lactate_perm; cl00701 397945013579 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 397945013580 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 397945013581 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 397945013582 Ligand Binding Site [chemical binding]; other site 397945013583 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 397945013584 nudix motif; other site 397945013585 EamA-like transporter family; Region: EamA; pfam00892 397945013586 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 397945013587 dimerization interface [polypeptide binding]; other site 397945013588 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 397945013589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945013590 Coenzyme A binding pocket [chemical binding]; other site 397945013591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945013592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013593 metal binding site [ion binding]; metal-binding site 397945013594 active site 397945013595 I-site; other site 397945013596 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 397945013597 Lumazine binding domain; Region: Lum_binding; pfam00677 397945013598 Lumazine binding domain; Region: Lum_binding; pfam00677 397945013599 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 397945013600 putative active site [active] 397945013601 PAS fold; Region: PAS_3; pfam08447 397945013602 heme pocket [chemical binding]; other site 397945013603 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 397945013604 GAF domain; Region: GAF; pfam01590 397945013605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945013606 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 397945013607 dimer interface [polypeptide binding]; other site 397945013608 phosphorylation site [posttranslational modification] 397945013609 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 397945013610 ATP binding site [chemical binding]; other site 397945013611 Mg2+ binding site [ion binding]; other site 397945013612 G-X-G motif; other site 397945013613 Response regulator receiver domain; Region: Response_reg; pfam00072 397945013614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 397945013615 active site 397945013616 phosphorylation site [posttranslational modification] 397945013617 intermolecular recognition site; other site 397945013618 dimerization interface [polypeptide binding]; other site 397945013619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 397945013620 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 397945013621 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 397945013622 spermidine synthase; Provisional; Region: PRK03612 397945013623 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 397945013624 S-adenosylmethionine binding site [chemical binding]; other site 397945013625 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 397945013626 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 397945013627 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 397945013628 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 397945013629 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 397945013630 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 397945013631 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 397945013632 Short C-terminal domain; Region: SHOCT; pfam09851 397945013633 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 397945013634 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 397945013635 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 397945013636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945013637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 397945013638 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 397945013639 dimerization interface [polypeptide binding]; other site 397945013640 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 397945013641 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 397945013642 inhibitor-cofactor binding pocket; inhibition site 397945013643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945013644 catalytic residue [active] 397945013645 Putative amidotransferase; Region: DUF4066; pfam13278 397945013646 conserved cys residue [active] 397945013647 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 397945013648 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 397945013649 tetrameric interface [polypeptide binding]; other site 397945013650 NAD binding site [chemical binding]; other site 397945013651 catalytic residues [active] 397945013652 OmpA family; Region: OmpA; pfam00691 397945013653 ligand binding site [chemical binding]; other site 397945013654 MASE2 domain; Region: MASE2; pfam05230 397945013655 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945013656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013657 metal binding site [ion binding]; metal-binding site 397945013658 active site 397945013659 I-site; other site 397945013660 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945013661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945013662 DNA-binding site [nucleotide binding]; DNA binding site 397945013663 FCD domain; Region: FCD; pfam07729 397945013664 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945013665 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 397945013666 putative ligand binding site [chemical binding]; other site 397945013667 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 397945013668 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 397945013669 TM-ABC transporter signature motif; other site 397945013670 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945013671 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 397945013672 Walker A/P-loop; other site 397945013673 ATP binding site [chemical binding]; other site 397945013674 Q-loop/lid; other site 397945013675 ABC transporter signature motif; other site 397945013676 Walker B; other site 397945013677 D-loop; other site 397945013678 H-loop/switch region; other site 397945013679 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945013680 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 397945013681 Walker A/P-loop; other site 397945013682 ATP binding site [chemical binding]; other site 397945013683 Q-loop/lid; other site 397945013684 ABC transporter signature motif; other site 397945013685 Walker B; other site 397945013686 D-loop; other site 397945013687 H-loop/switch region; other site 397945013688 allantoate amidohydrolase; Reviewed; Region: PRK12893 397945013689 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 397945013690 active site 397945013691 metal binding site [ion binding]; metal-binding site 397945013692 dimer interface [polypeptide binding]; other site 397945013693 Uncharacterized conserved protein [Function unknown]; Region: COG5476 397945013694 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 397945013695 MlrC C-terminus; Region: MlrC_C; pfam07171 397945013696 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 397945013697 malic enzyme; Reviewed; Region: PRK12862 397945013698 Malic enzyme, N-terminal domain; Region: malic; pfam00390 397945013699 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 397945013700 putative NAD(P) binding site [chemical binding]; other site 397945013701 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 397945013702 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 397945013703 active site 397945013704 barstar interaction site; other site 397945013705 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 397945013706 putative RNAase interaction site [polypeptide binding]; other site 397945013707 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 397945013708 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 397945013709 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 397945013710 SurA N-terminal domain; Region: SurA_N; pfam09312 397945013711 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 397945013712 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 397945013713 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 397945013714 Organic solvent tolerance protein; Region: OstA_C; pfam04453 397945013715 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 397945013716 Phosphotransferase enzyme family; Region: APH; pfam01636 397945013717 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 397945013718 RNA methyltransferase, RsmE family; Region: TIGR00046 397945013719 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 397945013720 AAA domain; Region: AAA_23; pfam13476 397945013721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945013722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 397945013723 ABC transporter signature motif; other site 397945013724 Walker B; other site 397945013725 D-loop; other site 397945013726 H-loop/switch region; other site 397945013727 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 397945013728 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945013729 putative substrate translocation pore; other site 397945013730 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 397945013731 hypothetical protein; Provisional; Region: PRK07907 397945013732 metal binding site [ion binding]; metal-binding site 397945013733 putative dimer interface [polypeptide binding]; other site 397945013734 Helix-turn-helix domain; Region: HTH_18; pfam12833 397945013735 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945013736 ethanolamine permease; Region: 2A0305; TIGR00908 397945013737 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 397945013738 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 397945013739 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 397945013740 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 397945013741 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013742 metal binding site [ion binding]; metal-binding site 397945013743 active site 397945013744 I-site; other site 397945013745 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 397945013746 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 397945013747 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 397945013748 Predicted membrane protein [Function unknown]; Region: COG2119 397945013749 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 397945013750 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 397945013751 yybP-ykoY element as predicted by Rfam (RF00080), score 52.88 397945013752 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 397945013753 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 397945013754 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 397945013755 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 397945013756 short chain dehydrogenase; Provisional; Region: PRK07024 397945013757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013758 NAD(P) binding site [chemical binding]; other site 397945013759 active site 397945013760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 397945013761 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 397945013762 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 397945013763 active site 397945013764 motif I; other site 397945013765 motif II; other site 397945013766 KpsF/GutQ family protein; Region: kpsF; TIGR00393 397945013767 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 397945013768 putative active site [active] 397945013769 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 397945013770 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 397945013771 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 397945013772 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 397945013773 TrkA-N domain; Region: TrkA_N; pfam02254 397945013774 TrkA-C domain; Region: TrkA_C; pfam02080 397945013775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945013776 active site 397945013777 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945013778 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 397945013779 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 397945013780 Flavodoxin; Region: Flavodoxin_1; pfam00258 397945013781 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 397945013782 FAD binding pocket [chemical binding]; other site 397945013783 FAD binding motif [chemical binding]; other site 397945013784 catalytic residues [active] 397945013785 NAD binding pocket [chemical binding]; other site 397945013786 phosphate binding motif [ion binding]; other site 397945013787 beta-alpha-beta structure motif; other site 397945013788 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945013789 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 397945013790 ligand binding site [chemical binding]; other site 397945013791 flexible hinge region; other site 397945013792 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 397945013793 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 397945013794 trmE is a tRNA modification GTPase; Region: trmE; cd04164 397945013795 G1 box; other site 397945013796 GTP/Mg2+ binding site [chemical binding]; other site 397945013797 Switch I region; other site 397945013798 G2 box; other site 397945013799 Switch II region; other site 397945013800 G3 box; other site 397945013801 G4 box; other site 397945013802 G5 box; other site 397945013803 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 397945013804 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 397945013805 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 397945013806 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 397945013807 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 397945013808 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 397945013809 hypothetical protein; Provisional; Region: PRK14389 397945013810 Ribonuclease P; Region: Ribonuclease_P; pfam00825 397945013811 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399