-- dump date 20140619_100645 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1005058000001 Autotransporter beta-domain; Region: Autotransporter; cl17461 1005058000002 HTH-like domain; Region: HTH_21; pfam13276 1005058000003 Integrase core domain; Region: rve; pfam00665 1005058000004 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058000005 Integrase core domain; Region: rve_3; pfam13683 1005058000006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058000007 Transposase; Region: HTH_Tnp_1; pfam01527 1005058000008 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1005058000009 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 1005058000010 TPR motif; other site 1005058000011 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1005058000012 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1005058000013 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1005058000014 putative dimer interface [polypeptide binding]; other site 1005058000015 putative anticodon binding site; other site 1005058000016 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1005058000017 homodimer interface [polypeptide binding]; other site 1005058000018 motif 1; other site 1005058000019 motif 2; other site 1005058000020 active site 1005058000021 motif 3; other site 1005058000022 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1005058000023 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1005058000024 putative oxidoreductase; Provisional; Region: PRK11579 1005058000025 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005058000026 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005058000027 multidrug efflux protein; Reviewed; Region: PRK01766 1005058000028 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1005058000029 cation binding site [ion binding]; other site 1005058000030 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1005058000031 Lumazine binding domain; Region: Lum_binding; pfam00677 1005058000032 Lumazine binding domain; Region: Lum_binding; pfam00677 1005058000033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058000034 Transposase; Region: HTH_Tnp_1; pfam01527 1005058000035 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1005058000036 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058000037 DNA binding site [nucleotide binding] 1005058000038 domain linker motif; other site 1005058000039 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 1005058000040 dimerization interface [polypeptide binding]; other site 1005058000041 ligand binding site [chemical binding]; other site 1005058000042 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1005058000043 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 1005058000044 substrate binding site [chemical binding]; other site 1005058000045 active site 1005058000046 catalytic residues [active] 1005058000047 heterodimer interface [polypeptide binding]; other site 1005058000048 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1005058000049 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 1005058000050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058000051 catalytic residue [active] 1005058000052 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1005058000053 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 1005058000054 active site 1005058000055 ribulose/triose binding site [chemical binding]; other site 1005058000056 phosphate binding site [ion binding]; other site 1005058000057 substrate (anthranilate) binding pocket [chemical binding]; other site 1005058000058 product (indole) binding pocket [chemical binding]; other site 1005058000059 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 1005058000060 active site 1005058000061 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1005058000062 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1005058000063 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1005058000064 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1005058000065 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1005058000066 glutamine binding [chemical binding]; other site 1005058000067 catalytic triad [active] 1005058000068 anthranilate synthase component I; Provisional; Region: PRK13564 1005058000069 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1005058000070 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1005058000071 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1005058000072 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1005058000073 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1005058000074 Ligand Binding Site [chemical binding]; other site 1005058000075 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 1005058000076 active site residue [active] 1005058000077 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1005058000078 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1005058000079 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1005058000080 substrate binding pocket [chemical binding]; other site 1005058000081 chain length determination region; other site 1005058000082 substrate-Mg2+ binding site; other site 1005058000083 catalytic residues [active] 1005058000084 aspartate-rich region 1; other site 1005058000085 active site lid residues [active] 1005058000086 aspartate-rich region 2; other site 1005058000087 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1005058000088 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 1005058000089 TPP-binding site; other site 1005058000090 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 1005058000091 PYR/PP interface [polypeptide binding]; other site 1005058000092 dimer interface [polypeptide binding]; other site 1005058000093 TPP binding site [chemical binding]; other site 1005058000094 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1005058000095 LysE type translocator; Region: LysE; cl00565 1005058000096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005058000097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058000098 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 1005058000099 dimerization interface [polypeptide binding]; other site 1005058000100 pyruvate kinase; Provisional; Region: PRK05826 1005058000101 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 1005058000102 domain interfaces; other site 1005058000103 active site 1005058000104 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 1005058000105 catalytic core [active] 1005058000106 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1005058000107 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1005058000108 metal binding triad; other site 1005058000109 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1005058000110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005058000111 Zn2+ binding site [ion binding]; other site 1005058000112 Mg2+ binding site [ion binding]; other site 1005058000113 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 1005058000114 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 1005058000115 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 1005058000116 active site 1005058000117 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1005058000118 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1005058000119 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1005058000120 serine transporter; Region: stp; TIGR00814 1005058000121 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1005058000122 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1005058000123 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1005058000124 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1005058000125 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1005058000126 putative valine binding site [chemical binding]; other site 1005058000127 dimer interface [polypeptide binding]; other site 1005058000128 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1005058000129 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1005058000130 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005058000131 PYR/PP interface [polypeptide binding]; other site 1005058000132 dimer interface [polypeptide binding]; other site 1005058000133 TPP binding site [chemical binding]; other site 1005058000134 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005058000135 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 1005058000136 TPP-binding site [chemical binding]; other site 1005058000137 dimer interface [polypeptide binding]; other site 1005058000138 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1005058000139 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1005058000140 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1005058000141 glycogen synthase; Provisional; Region: glgA; PRK00654 1005058000142 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 1005058000143 ADP-binding pocket [chemical binding]; other site 1005058000144 homodimer interface [polypeptide binding]; other site 1005058000145 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1005058000146 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1005058000147 ligand binding site; other site 1005058000148 oligomer interface; other site 1005058000149 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 1005058000150 dimer interface [polypeptide binding]; other site 1005058000151 N-terminal domain interface [polypeptide binding]; other site 1005058000152 sulfate 1 binding site; other site 1005058000153 glycogen debranching enzyme; Provisional; Region: PRK03705 1005058000154 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 1005058000155 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1005058000156 active site 1005058000157 catalytic site [active] 1005058000158 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1005058000159 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1005058000160 glycogen branching enzyme; Provisional; Region: PRK05402 1005058000161 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1005058000162 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1005058000163 active site 1005058000164 catalytic site [active] 1005058000165 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1005058000166 Isochorismatase family; Region: Isochorismatase; pfam00857 1005058000167 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1005058000168 catalytic triad [active] 1005058000169 conserved cis-peptide bond; other site 1005058000170 hypothetical protein; Provisional; Region: PRK04946 1005058000171 Smr domain; Region: Smr; pfam01713 1005058000172 HemK family putative methylases; Region: hemK_fam; TIGR00536 1005058000173 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 1005058000174 S-adenosylmethionine binding site [chemical binding]; other site 1005058000175 cytosine deaminase; Provisional; Region: PRK09230 1005058000176 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 1005058000177 active site 1005058000178 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 1005058000179 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1005058000180 Na binding site [ion binding]; other site 1005058000181 putative substrate binding site [chemical binding]; other site 1005058000182 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1005058000183 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1005058000184 AAA domain; Region: AAA_30; pfam13604 1005058000185 Family description; Region: UvrD_C_2; pfam13538 1005058000186 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1005058000187 Part of AAA domain; Region: AAA_19; pfam13245 1005058000188 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1005058000189 DsrE/DsrF-like family; Region: DrsE; cl00672 1005058000190 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1005058000191 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1005058000192 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1005058000193 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 1005058000194 putative active site [active] 1005058000195 putative metal-binding site [ion binding]; other site 1005058000196 Predicted membrane protein [Function unknown]; Region: COG2431 1005058000197 LysE type translocator; Region: LysE; cl00565 1005058000198 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1005058000199 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1005058000200 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 1005058000201 active site 1005058000202 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 1005058000203 Ligand Binding Site [chemical binding]; other site 1005058000204 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1005058000205 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1005058000206 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1005058000207 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1005058000208 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1005058000209 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1005058000210 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1005058000211 probable active site [active] 1005058000212 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1005058000213 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 1005058000214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1005058000215 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1005058000216 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1005058000217 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1005058000218 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1005058000219 AAA domain; Region: AAA_26; pfam13500 1005058000220 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1005058000221 outer membrane protein A; Reviewed; Region: PRK10808 1005058000222 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1005058000223 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005058000224 ligand binding site [chemical binding]; other site 1005058000225 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005058000226 FAD binding domain; Region: FAD_binding_4; pfam01565 1005058000227 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1005058000228 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 1005058000229 CoenzymeA binding site [chemical binding]; other site 1005058000230 subunit interaction site [polypeptide binding]; other site 1005058000231 PHB binding site; other site 1005058000232 ferrochelatase; Reviewed; Region: hemH; PRK00035 1005058000233 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 1005058000234 C-terminal domain interface [polypeptide binding]; other site 1005058000235 active site 1005058000236 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 1005058000237 active site 1005058000238 N-terminal domain interface [polypeptide binding]; other site 1005058000239 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1005058000240 Class II fumarases; Region: Fumarase_classII; cd01362 1005058000241 active site 1005058000242 tetramer interface [polypeptide binding]; other site 1005058000243 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1005058000244 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1005058000245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058000246 active site 1005058000247 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1005058000248 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005058000249 MarR family; Region: MarR_2; cl17246 1005058000250 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1005058000251 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1005058000252 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005058000253 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1005058000254 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 1005058000255 putative substrate translocation pore; other site 1005058000256 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 1005058000257 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1005058000258 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005058000259 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005058000260 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 1005058000261 S-adenosylmethionine binding site [chemical binding]; other site 1005058000262 seryl-tRNA synthetase; Provisional; Region: PRK05431 1005058000263 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1005058000264 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 1005058000265 dimer interface [polypeptide binding]; other site 1005058000266 active site 1005058000267 motif 1; other site 1005058000268 motif 2; other site 1005058000269 motif 3; other site 1005058000270 transcription-repair coupling factor; Provisional; Region: PRK10689 1005058000271 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1005058000272 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 1005058000273 ATP binding site [chemical binding]; other site 1005058000274 putative Mg++ binding site [ion binding]; other site 1005058000275 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 1005058000276 nucleotide binding region [chemical binding]; other site 1005058000277 ATP-binding site [chemical binding]; other site 1005058000278 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1005058000279 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1005058000280 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1005058000281 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1005058000282 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1005058000283 putative RNA binding site [nucleotide binding]; other site 1005058000284 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 1005058000285 S-adenosylmethionine binding site [chemical binding]; other site 1005058000286 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1005058000287 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 1005058000288 putative ATP binding site [chemical binding]; other site 1005058000289 putative substrate interface [chemical binding]; other site 1005058000290 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1005058000291 MltA specific insert domain; Region: MltA; smart00925 1005058000292 3D domain; Region: 3D; pfam06725 1005058000293 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1005058000294 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 1005058000295 active site 1005058000296 tetramer interface [polypeptide binding]; other site 1005058000297 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058000298 active site 1005058000299 Colicin V production protein; Region: Colicin_V; cl00567 1005058000300 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1005058000301 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 1005058000302 catalytic core [active] 1005058000303 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1005058000304 putative GSH binding site [chemical binding]; other site 1005058000305 catalytic residues [active] 1005058000306 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1005058000307 Repair protein; Region: Repair_PSII; pfam04536 1005058000308 Repair protein; Region: Repair_PSII; cl01535 1005058000309 LemA family; Region: LemA; pfam04011 1005058000310 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1005058000311 outer membrane lipoprotein; Provisional; Region: PRK11023 1005058000312 BON domain; Region: BON; pfam04972 1005058000313 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 1005058000314 dimer interface [polypeptide binding]; other site 1005058000315 active site 1005058000316 hypothetical protein; Reviewed; Region: PRK12497 1005058000317 LppC putative lipoprotein; Region: LppC; pfam04348 1005058000318 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1005058000319 putative ligand binding site [chemical binding]; other site 1005058000320 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1005058000321 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1005058000322 putative SAM binding site [chemical binding]; other site 1005058000323 putative homodimer interface [polypeptide binding]; other site 1005058000324 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1005058000325 GTP-binding protein Der; Reviewed; Region: PRK00093 1005058000326 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1005058000327 G1 box; other site 1005058000328 GTP/Mg2+ binding site [chemical binding]; other site 1005058000329 Switch I region; other site 1005058000330 G2 box; other site 1005058000331 Switch II region; other site 1005058000332 G3 box; other site 1005058000333 G4 box; other site 1005058000334 G5 box; other site 1005058000335 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1005058000336 G1 box; other site 1005058000337 GTP/Mg2+ binding site [chemical binding]; other site 1005058000338 Switch I region; other site 1005058000339 G2 box; other site 1005058000340 G3 box; other site 1005058000341 Switch II region; other site 1005058000342 G4 box; other site 1005058000343 G5 box; other site 1005058000344 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1005058000345 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1005058000346 conserved cys residue [active] 1005058000347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005058000348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005058000349 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1005058000350 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1005058000351 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1005058000352 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 1005058000353 putative active site [active] 1005058000354 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 1005058000355 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1005058000356 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 1005058000357 active site 1005058000358 motif I; other site 1005058000359 motif II; other site 1005058000360 BCCT family transporter; Region: BCCT; pfam02028 1005058000361 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1005058000362 RNA/DNA hybrid binding site [nucleotide binding]; other site 1005058000363 active site 1005058000364 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1005058000365 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 1005058000366 active site 1005058000367 catalytic site [active] 1005058000368 substrate binding site [chemical binding]; other site 1005058000369 putative protease; Provisional; Region: PRK15452 1005058000370 Peptidase family U32; Region: Peptidase_U32; pfam01136 1005058000371 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005058000372 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058000373 DNA binding site [nucleotide binding] 1005058000374 domain linker motif; other site 1005058000375 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1005058000376 dimerization interface [polypeptide binding]; other site 1005058000377 ligand binding site [chemical binding]; other site 1005058000378 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1005058000379 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1005058000380 active site 1005058000381 NAD binding site [chemical binding]; other site 1005058000382 metal binding site [ion binding]; metal-binding site 1005058000383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005058000384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058000385 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 1005058000386 dimerization interface [polypeptide binding]; other site 1005058000387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005058000388 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1005058000389 NAD(P) binding site [chemical binding]; other site 1005058000390 active site 1005058000391 NlpC/P60 family; Region: NLPC_P60; pfam00877 1005058000392 endonuclease IV; Provisional; Region: PRK01060 1005058000393 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1005058000394 AP (apurinic/apyrimidinic) site pocket; other site 1005058000395 DNA interaction; other site 1005058000396 Metal-binding active site; metal-binding site 1005058000397 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1005058000398 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1005058000399 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1005058000400 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005058000401 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1005058000402 acyl-activating enzyme (AAE) consensus motif; other site 1005058000403 putative AMP binding site [chemical binding]; other site 1005058000404 putative active site [active] 1005058000405 putative CoA binding site [chemical binding]; other site 1005058000406 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1005058000407 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005058000408 Walker A/P-loop; other site 1005058000409 ATP binding site [chemical binding]; other site 1005058000410 Q-loop/lid; other site 1005058000411 ABC transporter signature motif; other site 1005058000412 Walker B; other site 1005058000413 D-loop; other site 1005058000414 H-loop/switch region; other site 1005058000415 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1005058000416 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1005058000417 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005058000418 Walker A/P-loop; other site 1005058000419 ATP binding site [chemical binding]; other site 1005058000420 Q-loop/lid; other site 1005058000421 ABC transporter signature motif; other site 1005058000422 Walker B; other site 1005058000423 D-loop; other site 1005058000424 H-loop/switch region; other site 1005058000425 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005058000426 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1005058000427 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1005058000428 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 1005058000429 dimer interface [polypeptide binding]; other site 1005058000430 conserved gate region; other site 1005058000431 putative PBP binding loops; other site 1005058000432 ABC-ATPase subunit interface; other site 1005058000433 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1005058000434 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 1005058000435 dimer interface [polypeptide binding]; other site 1005058000436 conserved gate region; other site 1005058000437 putative PBP binding loops; other site 1005058000438 ABC-ATPase subunit interface; other site 1005058000439 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1005058000440 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1005058000441 peptide binding site [polypeptide binding]; other site 1005058000442 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1005058000443 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1005058000444 peptide binding site [polypeptide binding]; other site 1005058000445 selenophosphate synthetase; Provisional; Region: PRK00943 1005058000446 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1005058000447 dimerization interface [polypeptide binding]; other site 1005058000448 putative ATP binding site [chemical binding]; other site 1005058000449 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 1005058000450 homopentamer interface [polypeptide binding]; other site 1005058000451 active site 1005058000452 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1005058000453 putative RNA binding site [nucleotide binding]; other site 1005058000454 thiamine monophosphate kinase; Provisional; Region: PRK05731 1005058000455 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 1005058000456 ATP binding site [chemical binding]; other site 1005058000457 dimerization interface [polypeptide binding]; other site 1005058000458 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1005058000459 tetramer interfaces [polypeptide binding]; other site 1005058000460 binuclear metal-binding site [ion binding]; other site 1005058000461 LysE type translocator; Region: LysE; cl00565 1005058000462 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1005058000463 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1005058000464 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1005058000465 putative active site [active] 1005058000466 Uncharacterized protein family (UPF0181); Region: UPF0181; cl11477 1005058000467 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1005058000468 putative inner membrane peptidase; Provisional; Region: PRK11778 1005058000469 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1005058000470 tandem repeat interface [polypeptide binding]; other site 1005058000471 oligomer interface [polypeptide binding]; other site 1005058000472 active site residues [active] 1005058000473 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 1005058000474 FAD binding site [chemical binding]; other site 1005058000475 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1005058000476 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005058000477 active site 1005058000478 HIGH motif; other site 1005058000479 nucleotide binding site [chemical binding]; other site 1005058000480 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1005058000481 KMSKS motif; other site 1005058000482 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1005058000483 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1005058000484 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 1005058000485 carboxyltransferase (CT) interaction site; other site 1005058000486 biotinylation site [posttranslational modification]; other site 1005058000487 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005058000488 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1005058000489 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005058000490 Walker A/P-loop; other site 1005058000491 ATP binding site [chemical binding]; other site 1005058000492 Q-loop/lid; other site 1005058000493 ABC transporter signature motif; other site 1005058000494 Walker B; other site 1005058000495 D-loop; other site 1005058000496 H-loop/switch region; other site 1005058000497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1005058000498 FtsX-like permease family; Region: FtsX; pfam02687 1005058000499 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1005058000500 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 1005058000501 DNA-binding site [nucleotide binding]; DNA binding site 1005058000502 RNA-binding motif; other site 1005058000503 exonuclease I; Provisional; Region: sbcB; PRK11779 1005058000504 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1005058000505 active site 1005058000506 catalytic site [active] 1005058000507 substrate binding site [chemical binding]; other site 1005058000508 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1005058000509 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1005058000510 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1005058000511 metal binding site [ion binding]; metal-binding site 1005058000512 dimer interface [polypeptide binding]; other site 1005058000513 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1005058000514 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1005058000515 Walker A/P-loop; other site 1005058000516 ATP binding site [chemical binding]; other site 1005058000517 Q-loop/lid; other site 1005058000518 ABC transporter signature motif; other site 1005058000519 Walker B; other site 1005058000520 D-loop; other site 1005058000521 H-loop/switch region; other site 1005058000522 TOBE domain; Region: TOBE_2; pfam08402 1005058000523 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1005058000524 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 1005058000525 dimer interface [polypeptide binding]; other site 1005058000526 conserved gate region; other site 1005058000527 putative PBP binding loops; other site 1005058000528 ABC-ATPase subunit interface; other site 1005058000529 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1005058000530 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 1005058000531 dimer interface [polypeptide binding]; other site 1005058000532 conserved gate region; other site 1005058000533 putative PBP binding loops; other site 1005058000534 ABC-ATPase subunit interface; other site 1005058000535 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1005058000536 HTH-like domain; Region: HTH_21; pfam13276 1005058000537 Integrase core domain; Region: rve; pfam00665 1005058000538 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058000539 Integrase core domain; Region: rve_3; pfam13683 1005058000540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058000541 Transposase; Region: HTH_Tnp_1; pfam01527 1005058000542 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 1005058000543 Protein of unknown function DUF262; Region: DUF262; pfam03235 1005058000544 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1005058000545 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1005058000546 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1005058000547 Protein of unknown function DUF262; Region: DUF262; pfam03235 1005058000548 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; cd00296 1005058000549 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 1005058000550 WYL domain; Region: WYL; pfam13280 1005058000551 OsmC-like protein; Region: OsmC; pfam02566 1005058000552 YCII-related domain; Region: YCII; cl00999 1005058000553 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1005058000554 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005058000555 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005058000556 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058000557 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 1005058000558 dimerization interface [polypeptide binding]; other site 1005058000559 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005058000560 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005058000561 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 1005058000562 putative substrate translocation pore; other site 1005058000563 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 1005058000564 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005058000565 active site 1005058000566 catalytic tetrad [active] 1005058000567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005058000568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058000569 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 1005058000570 dimerization interface [polypeptide binding]; other site 1005058000571 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1005058000572 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1005058000573 putative acyl-acceptor binding pocket; other site 1005058000574 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1005058000575 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1005058000576 putative ribose interaction site [chemical binding]; other site 1005058000577 putative ADP binding site [chemical binding]; other site 1005058000578 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1005058000579 active site 1005058000580 nucleotide binding site [chemical binding]; other site 1005058000581 HIGH motif; other site 1005058000582 KMSKS motif; other site 1005058000583 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 1005058000584 putative catalytic site [active] 1005058000585 putative phosphate binding site [ion binding]; other site 1005058000586 active site 1005058000587 metal binding site A [ion binding]; metal-binding site 1005058000588 DNA binding site [nucleotide binding] 1005058000589 putative AP binding site [nucleotide binding]; other site 1005058000590 putative metal binding site B [ion binding]; other site 1005058000591 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1005058000592 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1005058000593 active site 1005058000594 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1005058000595 catalytic triad [active] 1005058000596 dimer interface [polypeptide binding]; other site 1005058000597 glycogen phosphorylase; Provisional; Region: PRK14986 1005058000598 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1005058000599 homodimer interface [polypeptide binding]; other site 1005058000600 active site pocket [active] 1005058000601 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1005058000602 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005058000603 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1005058000604 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1005058000605 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1005058000606 serine endoprotease; Provisional; Region: PRK10898 1005058000607 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1005058000608 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 1005058000609 protein binding site [polypeptide binding]; other site 1005058000610 protease 4; Provisional; Region: PRK10949 1005058000611 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1005058000612 tandem repeat interface [polypeptide binding]; other site 1005058000613 oligomer interface [polypeptide binding]; other site 1005058000614 active site residues [active] 1005058000615 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1005058000616 tandem repeat interface [polypeptide binding]; other site 1005058000617 oligomer interface [polypeptide binding]; other site 1005058000618 active site residues [active] 1005058000619 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1005058000620 putative FMN binding site [chemical binding]; other site 1005058000621 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1005058000622 Chorismate mutase type II; Region: CM_2; cl00693 1005058000623 arogenate dehydrogenase; Region: PLN02256 1005058000624 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1005058000625 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1005058000626 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1005058000627 integrase; Provisional; Region: PRK09692 1005058000628 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 1005058000629 active site 1005058000630 Int/Topo IB signature motif; other site 1005058000631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1005058000632 MULE transposase domain; Region: MULE; pfam10551 1005058000633 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1005058000634 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1005058000635 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005058000636 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 1005058000637 non-specific DNA binding site [nucleotide binding]; other site 1005058000638 salt bridge; other site 1005058000639 sequence-specific DNA binding site [nucleotide binding]; other site 1005058000640 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1005058000641 Haemolytic domain; Region: Haemolytic; pfam01809 1005058000642 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 1005058000643 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1005058000644 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058000645 ATP binding site [chemical binding]; other site 1005058000646 Mg2+ binding site [ion binding]; other site 1005058000647 G-X-G motif; other site 1005058000648 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 1005058000649 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1005058000650 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 1005058000651 cofactor binding site; other site 1005058000652 DNA binding site [nucleotide binding] 1005058000653 substrate interaction site [chemical binding]; other site 1005058000654 tail protein; Provisional; Region: D; PHA02561 1005058000655 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1005058000656 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1005058000657 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1005058000658 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1005058000659 major tail sheath protein; Provisional; Region: FI; PHA02560 1005058000660 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 1005058000661 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1005058000662 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1005058000663 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1005058000664 Baseplate J-like protein; Region: Baseplate_J; cl01294 1005058000665 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1005058000666 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1005058000667 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1005058000668 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 1005058000669 non-specific DNA binding site [nucleotide binding]; other site 1005058000670 salt bridge; other site 1005058000671 sequence-specific DNA binding site [nucleotide binding]; other site 1005058000672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058000673 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058000674 Probable transposase; Region: OrfB_IS605; pfam01385 1005058000675 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058000676 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1005058000677 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1005058000678 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1005058000679 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1005058000680 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1005058000681 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1005058000682 catalytic residues [active] 1005058000683 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1005058000684 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1005058000685 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1005058000686 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1005058000687 capsid protein; Provisional; Region: N; PHA02538 1005058000688 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1005058000689 terminase ATPase subunit; Provisional; Region: P; PHA02535 1005058000690 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1005058000691 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1005058000692 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1005058000693 Phage portal protein; Region: Phage_portal; pfam04860 1005058000694 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1005058000695 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1005058000696 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 1005058000697 Walker A motif; other site 1005058000698 ATP binding site [chemical binding]; other site 1005058000699 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1005058000700 Walker B motif; other site 1005058000701 arginine finger; other site 1005058000702 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1005058000703 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 1005058000704 active site 1005058000705 HslU subunit interaction site [polypeptide binding]; other site 1005058000706 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1005058000707 Sulfatase; Region: Sulfatase; pfam00884 1005058000708 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1005058000709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1005058000710 Peptidase M15; Region: Peptidase_M15_3; cl01194 1005058000711 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1005058000712 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1005058000713 carboxy-terminal protease; Provisional; Region: PRK11186 1005058000714 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 1005058000715 protein binding site [polypeptide binding]; other site 1005058000716 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1005058000717 Catalytic dyad [active] 1005058000718 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1005058000719 putative RNA binding sites [nucleotide binding]; other site 1005058000720 ProP expression regulator; Provisional; Region: PRK04950 1005058000721 ProQ/FINO family; Region: ProQ; pfam04352 1005058000722 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1005058000723 Paraquat-inducible protein A; Region: PqiA; pfam04403 1005058000724 Paraquat-inducible protein A; Region: PqiA; pfam04403 1005058000725 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1005058000726 mce related protein; Region: MCE; pfam02470 1005058000727 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1005058000728 mce related protein; Region: MCE; pfam02470 1005058000729 mce related protein; Region: MCE; pfam02470 1005058000730 ABC transporter ATPase component; Reviewed; Region: PRK11147 1005058000731 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058000732 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058000733 ABC transporter; Region: ABC_tran_2; pfam12848 1005058000734 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058000735 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1005058000736 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1005058000737 putative ligand binding residues [chemical binding]; other site 1005058000738 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1005058000739 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1005058000740 Walker A/P-loop; other site 1005058000741 ATP binding site [chemical binding]; other site 1005058000742 Q-loop/lid; other site 1005058000743 ABC transporter signature motif; other site 1005058000744 Walker B; other site 1005058000745 D-loop; other site 1005058000746 H-loop/switch region; other site 1005058000747 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1005058000748 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 1005058000749 ABC-ATPase subunit interface; other site 1005058000750 dimer interface [polypeptide binding]; other site 1005058000751 putative PBP binding regions; other site 1005058000752 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1005058000753 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 1005058000754 ABC-ATPase subunit interface; other site 1005058000755 dimer interface [polypeptide binding]; other site 1005058000756 putative PBP binding regions; other site 1005058000757 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1005058000758 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005058000759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058000760 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1005058000761 Walker A/P-loop; other site 1005058000762 ATP binding site [chemical binding]; other site 1005058000763 Q-loop/lid; other site 1005058000764 ABC transporter signature motif; other site 1005058000765 Walker B; other site 1005058000766 D-loop; other site 1005058000767 H-loop/switch region; other site 1005058000768 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1005058000769 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 1005058000770 dimer interface [polypeptide binding]; other site 1005058000771 conserved gate region; other site 1005058000772 putative PBP binding loops; other site 1005058000773 ABC-ATPase subunit interface; other site 1005058000774 inner membrane transport permease; Provisional; Region: PRK15066 1005058000775 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1005058000776 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1005058000777 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1005058000778 Walker A/P-loop; other site 1005058000779 ATP binding site [chemical binding]; other site 1005058000780 Q-loop/lid; other site 1005058000781 ABC transporter signature motif; other site 1005058000782 Walker B; other site 1005058000783 D-loop; other site 1005058000784 H-loop/switch region; other site 1005058000785 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 1005058000786 active site clefts [active] 1005058000787 zinc binding site [ion binding]; other site 1005058000788 dimer interface [polypeptide binding]; other site 1005058000789 Protein of unknown function, DUF462; Region: DUF462; cl01190 1005058000790 heat shock protein HtpX; Provisional; Region: PRK05457 1005058000791 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1005058000792 active site 1005058000793 DNA polymerase IV; Validated; Region: PRK02406 1005058000794 DNA binding site [nucleotide binding] 1005058000795 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 1005058000796 active site 1005058000797 putative DNA-binding cleft [nucleotide binding]; other site 1005058000798 dimer interface [polypeptide binding]; other site 1005058000799 hypothetical protein; Validated; Region: PRK00110 1005058000800 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1005058000801 nudix motif; other site 1005058000802 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1005058000803 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1005058000804 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 1005058000805 dimer interface [polypeptide binding]; other site 1005058000806 anticodon binding site; other site 1005058000807 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 1005058000808 homodimer interface [polypeptide binding]; other site 1005058000809 motif 1; other site 1005058000810 active site 1005058000811 motif 2; other site 1005058000812 GAD domain; Region: GAD; pfam02938 1005058000813 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 1005058000814 active site 1005058000815 motif 3; other site 1005058000816 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 1005058000817 S-adenosylmethionine binding site [chemical binding]; other site 1005058000818 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1005058000819 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 1005058000820 homodimer interface [polypeptide binding]; other site 1005058000821 substrate-cofactor binding pocket; other site 1005058000822 catalytic residue [active] 1005058000823 malate dehydrogenase; Provisional; Region: PRK05086 1005058000824 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1005058000825 NAD binding site [chemical binding]; other site 1005058000826 dimerization interface [polypeptide binding]; other site 1005058000827 Substrate binding site [chemical binding]; other site 1005058000828 arginine repressor; Provisional; Region: PRK05066 1005058000829 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1005058000830 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1005058000831 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1005058000832 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1005058000833 putative NAD(P) binding site [chemical binding]; other site 1005058000834 putative active site [active] 1005058000835 uncharacterized domain; Region: TIGR00702 1005058000836 YcaO-like family; Region: YcaO; pfam02624 1005058000837 MoxR-like ATPases [General function prediction only]; Region: COG0714 1005058000838 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 1005058000839 Walker A motif; other site 1005058000840 ATP binding site [chemical binding]; other site 1005058000841 Walker B motif; other site 1005058000842 arginine finger; other site 1005058000843 ImpA domain protein; Region: DUF3702; pfam12486 1005058000844 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1005058000845 metal ion-dependent adhesion site (MIDAS); other site 1005058000846 TIGR01666 family membrane protein; Region: YCCS 1005058000847 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1005058000848 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1005058000849 Predicted membrane protein [Function unknown]; Region: COG3304 1005058000850 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1005058000851 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1005058000852 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1005058000853 active site 1005058000854 dimer interfaces [polypeptide binding]; other site 1005058000855 catalytic residues [active] 1005058000856 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1005058000857 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 1005058000858 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1005058000859 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 1005058000860 ABC-ATPase subunit interface; other site 1005058000861 dimer interface [polypeptide binding]; other site 1005058000862 putative PBP binding regions; other site 1005058000863 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1005058000864 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 1005058000865 ABC-ATPase subunit interface; other site 1005058000866 dimer interface [polypeptide binding]; other site 1005058000867 putative PBP binding regions; other site 1005058000868 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1005058000869 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1005058000870 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1005058000871 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1005058000872 metal binding site [ion binding]; metal-binding site 1005058000873 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1005058000874 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1005058000875 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1005058000876 YccA-like proteins; Region: YccA_like; cd10433 1005058000877 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1005058000878 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 1005058000879 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005058000880 catalytic residue [active] 1005058000881 Fimbrial protein; Region: Fimbrial; pfam00419 1005058000882 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1005058000883 PapC N-terminal domain; Region: PapC_N; pfam13954 1005058000884 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1005058000885 PapC C-terminal domain; Region: PapC_C; pfam13953 1005058000886 putative chaperone protein EcpD; Provisional; Region: PRK09926 1005058000887 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1005058000888 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1005058000889 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005058000890 YcgL domain; Region: YcgL; pfam05166 1005058000891 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1005058000892 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 1005058000893 S-adenosylmethionine binding site [chemical binding]; other site 1005058000894 Sulfatase; Region: Sulfatase; pfam00884 1005058000895 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 1005058000896 active site 1005058000897 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 1005058000898 active site 1005058000899 catalytic triad [active] 1005058000900 oxyanion hole [active] 1005058000901 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1005058000902 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 1005058000903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005058000904 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 1005058000905 putative ADP-binding pocket [chemical binding]; other site 1005058000906 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1005058000907 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1005058000908 active site 1005058000909 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1005058000910 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1005058000911 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1005058000912 Chain length determinant protein; Region: Wzz; cl15801 1005058000913 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1005058000914 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1005058000915 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1005058000916 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1005058000917 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1005058000918 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005058000919 ligand binding site [chemical binding]; other site 1005058000920 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1005058000921 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 1005058000922 active site 1005058000923 substrate binding site [chemical binding]; other site 1005058000924 metal binding site [ion binding]; metal-binding site 1005058000925 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 1005058000926 dihydropteroate synthase; Region: DHPS; TIGR01496 1005058000927 substrate binding pocket [chemical binding]; other site 1005058000928 dimer interface [polypeptide binding]; other site 1005058000929 inhibitor binding site; inhibition site 1005058000930 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1005058000931 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1005058000932 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005058000933 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1005058000934 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 1005058000935 dimer interface [polypeptide binding]; other site 1005058000936 active site 1005058000937 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1005058000938 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1005058000939 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 1005058000940 active site 1005058000941 catalytic residues [active] 1005058000942 DNA binding site [nucleotide binding] 1005058000943 Int/Topo IB signature motif; other site 1005058000944 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1005058000945 Putative helicase; Region: TraI_2; pfam07514 1005058000946 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1005058000947 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005058000948 trimer interface [polypeptide binding]; other site 1005058000949 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1005058000950 YadA-like C-terminal region; Region: YadA; pfam03895 1005058000951 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1005058000952 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 1005058000953 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1005058000954 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1005058000955 virion protein; Provisional; Region: V; PHA02564 1005058000956 AAA domain; Region: AAA_21; pfam13304 1005058000957 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 1005058000958 Walker B motif; other site 1005058000959 arginine finger; other site 1005058000960 Domain of unknown function (DUF955); Region: DUF955; cl01076 1005058000961 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1005058000962 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1005058000963 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1005058000964 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1005058000965 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1005058000966 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1005058000967 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1005058000968 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1005058000969 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1005058000970 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1005058000971 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1005058000972 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1005058000973 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 1005058000974 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1005058000975 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1005058000976 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1005058000977 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1005058000978 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1005058000979 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1005058000980 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1005058000981 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1005058000982 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1005058000983 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1005058000984 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 1005058000985 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005058000986 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1005058000987 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1005058000988 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1005058000989 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1005058000990 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1005058000991 DNA topoisomerase III; Provisional; Region: PRK07726 1005058000992 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 1005058000993 active site 1005058000994 putative interdomain interaction site [polypeptide binding]; other site 1005058000995 putative metal-binding site [ion binding]; other site 1005058000996 putative nucleotide binding site [chemical binding]; other site 1005058000997 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 1005058000998 domain I; other site 1005058000999 DNA binding groove [nucleotide binding] 1005058001000 phosphate binding site [ion binding]; other site 1005058001001 domain II; other site 1005058001002 domain III; other site 1005058001003 nucleotide binding site [chemical binding]; other site 1005058001004 catalytic site [active] 1005058001005 domain IV; other site 1005058001006 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1005058001007 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1005058001008 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1005058001009 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1005058001010 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 1005058001011 dimer interface [polypeptide binding]; other site 1005058001012 ssDNA binding site [nucleotide binding]; other site 1005058001013 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005058001014 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1005058001015 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1005058001016 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1005058001017 ParB-like nuclease domain; Region: ParB; smart00470 1005058001018 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1005058001019 replicative DNA helicase; Region: DnaB; TIGR00665 1005058001020 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 1005058001021 Walker A motif; other site 1005058001022 ATP binding site [chemical binding]; other site 1005058001023 Walker B motif; other site 1005058001024 DNA binding loops [nucleotide binding] 1005058001025 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1005058001026 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 1005058001027 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 1005058001028 P-loop; other site 1005058001029 Magnesium ion binding site [ion binding]; other site 1005058001030 Predicted membrane protein [Function unknown]; Region: COG2707 1005058001031 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1005058001032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058001033 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 1005058001034 putative dimerization interface [polypeptide binding]; other site 1005058001035 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1005058001036 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 1005058001037 THF binding site; other site 1005058001038 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 1005058001039 substrate binding site [chemical binding]; other site 1005058001040 THF binding site; other site 1005058001041 zinc-binding site [ion binding]; other site 1005058001042 ribonuclease G; Provisional; Region: PRK11712 1005058001043 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 1005058001044 homodimer interface [polypeptide binding]; other site 1005058001045 oligonucleotide binding site [chemical binding]; other site 1005058001046 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 1005058001047 catalytic core [active] 1005058001048 protease TldD; Provisional; Region: tldD; PRK10735 1005058001049 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1005058001050 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 1005058001051 inhibitor-cofactor binding pocket; inhibition site 1005058001052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058001053 catalytic residue [active] 1005058001054 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1005058001055 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 1005058001056 Transporter associated domain; Region: CorC_HlyC; smart01091 1005058001057 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1005058001058 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1005058001059 putative active site [active] 1005058001060 catalytic triad [active] 1005058001061 putative dimer interface [polypeptide binding]; other site 1005058001062 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1005058001063 CoA binding domain; Region: CoA_binding; smart00881 1005058001064 CoA-ligase; Region: Ligase_CoA; pfam00549 1005058001065 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1005058001066 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1005058001067 CoA-ligase; Region: Ligase_CoA; pfam00549 1005058001068 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1005058001069 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 1005058001070 E3 interaction surface; other site 1005058001071 lipoyl attachment site [posttranslational modification]; other site 1005058001072 e3 binding domain; Region: E3_binding; pfam02817 1005058001073 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1005058001074 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1005058001075 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 1005058001076 TPP-binding site [chemical binding]; other site 1005058001077 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1005058001078 PYR/PP interface [polypeptide binding]; other site 1005058001079 dimer interface [polypeptide binding]; other site 1005058001080 TPP binding site [chemical binding]; other site 1005058001081 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 1005058001082 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1005058001083 dimer interface [polypeptide binding]; other site 1005058001084 active site 1005058001085 citrylCoA binding site [chemical binding]; other site 1005058001086 NADH binding [chemical binding]; other site 1005058001087 cationic pore residues; other site 1005058001088 oxalacetate/citrate binding site [chemical binding]; other site 1005058001089 coenzyme A binding site [chemical binding]; other site 1005058001090 catalytic triad [active] 1005058001091 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005058001092 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005058001093 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005058001094 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005058001095 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005058001096 multidrug efflux protein; Reviewed; Region: PRK09579 1005058001097 rod shape-determining protein MreB; Provisional; Region: PRK13927 1005058001098 MreB and similar proteins; Region: MreB_like; cd10225 1005058001099 nucleotide binding site [chemical binding]; other site 1005058001100 Mg binding site [ion binding]; other site 1005058001101 putative protofilament interaction site [polypeptide binding]; other site 1005058001102 RodZ interaction site [polypeptide binding]; other site 1005058001103 rod shape-determining protein MreC; Region: mreC; TIGR00219 1005058001104 rod shape-determining protein MreC; Region: MreC; pfam04085 1005058001105 rod shape-determining protein MreD; Region: MreD; cl01087 1005058001106 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1005058001107 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1005058001108 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 1005058001109 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1005058001110 uracil-xanthine permease; Region: ncs2; TIGR00801 1005058001111 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058001112 active site 1005058001113 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1005058001114 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 1005058001115 dimerization interface [polypeptide binding]; other site 1005058001116 putative ATP binding site [chemical binding]; other site 1005058001117 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1005058001118 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1005058001119 active site 1005058001120 substrate binding site [chemical binding]; other site 1005058001121 cosubstrate binding site; other site 1005058001122 catalytic site [active] 1005058001123 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1005058001124 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1005058001125 putative DNA-binding cleft [nucleotide binding]; other site 1005058001126 putative DNA clevage site; other site 1005058001127 molecular lever; other site 1005058001128 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1005058001129 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1005058001130 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1005058001131 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1005058001132 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1005058001133 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1005058001134 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058001135 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058001136 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1005058001137 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 1005058001138 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058001139 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058001140 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058001141 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058001142 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1005058001143 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 1005058001144 FeS/SAM binding site; other site 1005058001145 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1005058001146 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1005058001147 NAD binding site [chemical binding]; other site 1005058001148 homodimer interface [polypeptide binding]; other site 1005058001149 active site 1005058001150 substrate binding site [chemical binding]; other site 1005058001151 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1005058001152 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 1005058001153 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 1005058001154 putative substrate translocation pore; other site 1005058001155 adenylate kinase; Reviewed; Region: adk; PRK00279 1005058001156 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 1005058001157 AMP-binding site [chemical binding]; other site 1005058001158 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1005058001159 Predicted permeases [General function prediction only]; Region: COG0679 1005058001160 potential frameshift: common BLAST hit: gi|52426354|ref|YP_089491.1| Tra5 protein 1005058001161 Integrase core domain; Region: rve; pfam00665 1005058001162 Integrase core domain; Region: rve_3; pfam13683 1005058001163 HTH-like domain; Region: HTH_21; pfam13276 1005058001164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058001165 Transposase; Region: HTH_Tnp_1; pfam01527 1005058001166 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1005058001167 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1005058001168 trimer interface [polypeptide binding]; other site 1005058001169 active site 1005058001170 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1005058001171 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1005058001172 Sugar specificity; other site 1005058001173 Pyrimidine base specificity; other site 1005058001174 ATP-binding site [chemical binding]; other site 1005058001175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1005058001176 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1005058001177 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1005058001178 homodimer interface [polypeptide binding]; other site 1005058001179 NADP binding site [chemical binding]; other site 1005058001180 substrate binding site [chemical binding]; other site 1005058001181 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1005058001182 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; cl17355 1005058001183 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 1005058001184 FeS/SAM binding site; other site 1005058001185 TPR repeat; Region: TPR_11; pfam13414 1005058001186 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 1005058001187 binding surface 1005058001188 TPR motif; other site 1005058001189 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1005058001190 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1005058001191 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005058001192 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 1005058001193 non-specific DNA binding site [nucleotide binding]; other site 1005058001194 salt bridge; other site 1005058001195 sequence-specific DNA binding site [nucleotide binding]; other site 1005058001196 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1005058001197 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1005058001198 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1005058001199 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1005058001200 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1005058001201 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 1005058001202 dimer interface [polypeptide binding]; other site 1005058001203 motif 1; other site 1005058001204 active site 1005058001205 motif 2; other site 1005058001206 motif 3; other site 1005058001207 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 1005058001208 anticodon binding site; other site 1005058001209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1005058001210 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1005058001211 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1005058001212 23S rRNA binding site [nucleotide binding]; other site 1005058001213 L21 binding site [polypeptide binding]; other site 1005058001214 L13 binding site [polypeptide binding]; other site 1005058001215 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1005058001216 translation initiation factor IF-3; Region: infC; TIGR00168 1005058001217 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1005058001218 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1005058001219 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1005058001220 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005058001221 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1005058001222 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1005058001223 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 1005058001224 FeS/SAM binding site; other site 1005058001225 TRAM domain; Region: TRAM; pfam01938 1005058001226 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1005058001227 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1005058001228 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1005058001229 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1005058001230 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1005058001231 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1005058001232 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1005058001233 Protein export membrane protein; Region: SecD_SecF; pfam02355 1005058001234 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1005058001235 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 1005058001236 putative DNA binding site [nucleotide binding]; other site 1005058001237 putative Zn2+ binding site [ion binding]; other site 1005058001238 AsnC family; Region: AsnC_trans_reg; pfam01037 1005058001239 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1005058001240 dimer interface [polypeptide binding]; other site 1005058001241 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1005058001242 active site 1005058001243 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 1005058001244 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1005058001245 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005058001246 Walker A/P-loop; other site 1005058001247 ATP binding site [chemical binding]; other site 1005058001248 Q-loop/lid; other site 1005058001249 ABC transporter signature motif; other site 1005058001250 Walker B; other site 1005058001251 D-loop; other site 1005058001252 H-loop/switch region; other site 1005058001253 FtsX-like permease family; Region: FtsX; pfam02687 1005058001254 Protein of unknown function (DUF419); Region: DUF419; cl15265 1005058001255 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1005058001256 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1005058001257 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1005058001258 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1005058001259 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1005058001260 recombination factor protein RarA; Reviewed; Region: PRK13342 1005058001261 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 1005058001262 Walker A motif; other site 1005058001263 ATP binding site [chemical binding]; other site 1005058001264 Walker B motif; other site 1005058001265 arginine finger; other site 1005058001266 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1005058001267 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1005058001268 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005058001269 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1005058001270 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 1005058001271 dimer interface [polypeptide binding]; other site 1005058001272 conserved gate region; other site 1005058001273 putative PBP binding loops; other site 1005058001274 ABC-ATPase subunit interface; other site 1005058001275 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 1005058001276 dimer interface [polypeptide binding]; other site 1005058001277 conserved gate region; other site 1005058001278 putative PBP binding loops; other site 1005058001279 ABC-ATPase subunit interface; other site 1005058001280 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1005058001281 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1005058001282 Walker A/P-loop; other site 1005058001283 ATP binding site [chemical binding]; other site 1005058001284 Q-loop/lid; other site 1005058001285 ABC transporter signature motif; other site 1005058001286 Walker B; other site 1005058001287 D-loop; other site 1005058001288 H-loop/switch region; other site 1005058001289 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1005058001290 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1005058001291 cell division protein FtsZ; Validated; Region: PRK09330 1005058001292 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 1005058001293 nucleotide binding site [chemical binding]; other site 1005058001294 SulA interaction site; other site 1005058001295 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1005058001296 Cell division protein FtsA; Region: FtsA; smart00842 1005058001297 Cell division protein FtsA; Region: FtsA; pfam14450 1005058001298 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1005058001299 Cell division protein FtsQ; Region: FtsQ; pfam03799 1005058001300 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1005058001301 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1005058001302 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1005058001303 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1005058001304 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005058001305 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005058001306 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005058001307 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1005058001308 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 1005058001309 active site 1005058001310 homodimer interface [polypeptide binding]; other site 1005058001311 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1005058001312 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1005058001313 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005058001314 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005058001315 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1005058001316 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 1005058001317 Mg++ binding site [ion binding]; other site 1005058001318 putative catalytic motif [active] 1005058001319 putative substrate binding site [chemical binding]; other site 1005058001320 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1005058001321 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005058001322 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005058001323 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005058001324 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1005058001325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005058001326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005058001327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005058001328 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1005058001329 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1005058001330 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1005058001331 Cell division protein FtsL; Region: FtsL; cl11433 1005058001332 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1005058001333 MraW methylase family; Region: Methyltransf_5; pfam01795 1005058001334 cell division protein MraZ; Reviewed; Region: PRK00326 1005058001335 MraZ protein; Region: MraZ; pfam02381 1005058001336 MraZ protein; Region: MraZ; pfam02381 1005058001337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005058001338 DNA-binding site [nucleotide binding]; DNA binding site 1005058001339 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1005058001340 FCD domain; Region: FCD; pfam07729 1005058001341 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1005058001342 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1005058001343 putative NAD(P) binding site [chemical binding]; other site 1005058001344 catalytic Zn binding site [ion binding]; other site 1005058001345 structural Zn binding site [ion binding]; other site 1005058001346 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1005058001347 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1005058001348 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1005058001349 DctM-like transporters; Region: DctM; pfam06808 1005058001350 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1005058001351 altronate oxidoreductase; Provisional; Region: PRK03643 1005058001352 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1005058001353 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1005058001354 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1005058001355 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1005058001356 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1005058001357 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1005058001358 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058001359 ATP binding site [chemical binding]; other site 1005058001360 Mg2+ binding site [ion binding]; other site 1005058001361 G-X-G motif; other site 1005058001362 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 1005058001363 anchoring element; other site 1005058001364 dimer interface [polypeptide binding]; other site 1005058001365 ATP binding site [chemical binding]; other site 1005058001366 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 1005058001367 active site 1005058001368 putative metal-binding site [ion binding]; other site 1005058001369 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1005058001370 Der GTPase activator; Provisional; Region: PRK05244 1005058001371 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1005058001372 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1005058001373 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 1005058001374 FeS/SAM binding site; other site 1005058001375 HemN C-terminal domain; Region: HemN_C; pfam06969 1005058001376 YGGT family; Region: YGGT; pfam02325 1005058001377 YGGT family; Region: YGGT; pfam02325 1005058001378 hypothetical protein; Validated; Region: PRK05090 1005058001379 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1005058001380 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1005058001381 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005058001382 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1005058001383 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1005058001384 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1005058001385 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1005058001386 active site 1005058001387 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1005058001388 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1005058001389 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1005058001390 thymidylate kinase; Validated; Region: tmk; PRK00698 1005058001391 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 1005058001392 TMP-binding site; other site 1005058001393 ATP-binding site [chemical binding]; other site 1005058001394 YceG-like family; Region: YceG; pfam02618 1005058001395 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1005058001396 dimerization interface [polypeptide binding]; other site 1005058001397 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1005058001398 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 1005058001399 homodimer interface [polypeptide binding]; other site 1005058001400 substrate-cofactor binding pocket; other site 1005058001401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058001402 catalytic residue [active] 1005058001403 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1005058001404 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 1005058001405 trimer interface [polypeptide binding]; other site 1005058001406 active site 1005058001407 substrate binding site [chemical binding]; other site 1005058001408 CoA binding site [chemical binding]; other site 1005058001409 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1005058001410 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1005058001411 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1005058001412 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1005058001413 ligand binding site [chemical binding]; other site 1005058001414 homodimer interface [polypeptide binding]; other site 1005058001415 NAD(P) binding site [chemical binding]; other site 1005058001416 trimer interface B [polypeptide binding]; other site 1005058001417 trimer interface A [polypeptide binding]; other site 1005058001418 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1005058001419 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1005058001420 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1005058001421 active site 1005058001422 HIGH motif; other site 1005058001423 dimer interface [polypeptide binding]; other site 1005058001424 KMSKS motif; other site 1005058001425 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 1005058001426 RNA binding surface [nucleotide binding]; other site 1005058001427 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1005058001428 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1005058001429 G1 box; other site 1005058001430 putative GEF interaction site [polypeptide binding]; other site 1005058001431 GTP/Mg2+ binding site [chemical binding]; other site 1005058001432 Switch I region; other site 1005058001433 G2 box; other site 1005058001434 G3 box; other site 1005058001435 Switch II region; other site 1005058001436 G4 box; other site 1005058001437 G5 box; other site 1005058001438 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1005058001439 two-component response regulator; Provisional; Region: PRK11173 1005058001440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058001441 active site 1005058001442 phosphorylation site [posttranslational modification] 1005058001443 intermolecular recognition site; other site 1005058001444 dimerization interface [polypeptide binding]; other site 1005058001445 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 1005058001446 DNA binding site [nucleotide binding] 1005058001447 cell division protein ZipA; Provisional; Region: PRK01741 1005058001448 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 1005058001449 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1005058001450 FtsZ protein binding site [polypeptide binding]; other site 1005058001451 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1005058001452 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1005058001453 active site 1005058001454 nucleophile elbow; other site 1005058001455 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1005058001456 isocitrate dehydrogenase; Validated; Region: PRK07362 1005058001457 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1005058001458 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1005058001459 pseudouridine synthase; Region: TIGR00093 1005058001460 active site 1005058001461 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 1005058001462 nudix motif; other site 1005058001463 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1005058001464 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 1005058001465 dimer interface [polypeptide binding]; other site 1005058001466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058001467 catalytic residue [active] 1005058001468 acetyl-CoA synthetase; Provisional; Region: PRK00174 1005058001469 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1005058001470 active site 1005058001471 CoA binding site [chemical binding]; other site 1005058001472 acyl-activating enzyme (AAE) consensus motif; other site 1005058001473 AMP binding site [chemical binding]; other site 1005058001474 acetate binding site [chemical binding]; other site 1005058001475 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1005058001476 aconitate hydratase; Validated; Region: PRK09277 1005058001477 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1005058001478 substrate binding site [chemical binding]; other site 1005058001479 ligand binding site [chemical binding]; other site 1005058001480 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1005058001481 substrate binding site [chemical binding]; other site 1005058001482 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1005058001483 Citrate synthase; Region: Citrate_synt; pfam00285 1005058001484 oxalacetate binding site [chemical binding]; other site 1005058001485 citrylCoA binding site [chemical binding]; other site 1005058001486 coenzyme A binding site [chemical binding]; other site 1005058001487 catalytic triad [active] 1005058001488 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1005058001489 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 1005058001490 tetramer interface [polypeptide binding]; other site 1005058001491 active site 1005058001492 Mg2+/Mn2+ binding site [ion binding]; other site 1005058001493 acetyl-CoA synthetase; Provisional; Region: PRK00174 1005058001494 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1005058001495 active site 1005058001496 CoA binding site [chemical binding]; other site 1005058001497 acyl-activating enzyme (AAE) consensus motif; other site 1005058001498 AMP binding site [chemical binding]; other site 1005058001499 acetate binding site [chemical binding]; other site 1005058001500 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1005058001501 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1005058001502 tetramer interface [polypeptide binding]; other site 1005058001503 heme binding pocket [chemical binding]; other site 1005058001504 NADPH binding site [chemical binding]; other site 1005058001505 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1005058001506 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005058001507 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005058001508 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1005058001509 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 1005058001510 active site 1005058001511 dimer interface [polypeptide binding]; other site 1005058001512 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1005058001513 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 1005058001514 active site 1005058001515 FMN binding site [chemical binding]; other site 1005058001516 substrate binding site [chemical binding]; other site 1005058001517 3Fe-4S cluster binding site [ion binding]; other site 1005058001518 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 1005058001519 domain interface; other site 1005058001520 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005058001521 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005058001522 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005058001523 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005058001524 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 1005058001525 dimer interface [polypeptide binding]; other site 1005058001526 conserved gate region; other site 1005058001527 putative PBP binding loops; other site 1005058001528 ABC-ATPase subunit interface; other site 1005058001529 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 1005058001530 dimer interface [polypeptide binding]; other site 1005058001531 conserved gate region; other site 1005058001532 putative PBP binding loops; other site 1005058001533 ABC-ATPase subunit interface; other site 1005058001534 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005058001535 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1005058001536 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1005058001537 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1005058001538 Walker A/P-loop; other site 1005058001539 ATP binding site [chemical binding]; other site 1005058001540 Q-loop/lid; other site 1005058001541 ABC transporter signature motif; other site 1005058001542 Walker B; other site 1005058001543 D-loop; other site 1005058001544 H-loop/switch region; other site 1005058001545 TOBE domain; Region: TOBE; pfam03459 1005058001546 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005058001547 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005058001548 DNA-binding site [nucleotide binding]; DNA binding site 1005058001549 FCD domain; Region: FCD; pfam07729 1005058001550 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005058001551 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005058001552 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005058001553 Haem-binding domain; Region: Haem_bd; pfam14376 1005058001554 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1005058001555 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1005058001556 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1005058001557 transmembrane helices; other site 1005058001558 Protein of unknown function (DUF535); Region: DUF535; cl01128 1005058001559 N-acetylglutamate synthase; Validated; Region: PRK05279 1005058001560 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 1005058001561 putative feedback inhibition sensing region; other site 1005058001562 putative nucleotide binding site [chemical binding]; other site 1005058001563 putative substrate binding site [chemical binding]; other site 1005058001564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005058001565 Coenzyme A binding pocket [chemical binding]; other site 1005058001566 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 1005058001567 Ligand Binding Site [chemical binding]; other site 1005058001568 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1005058001569 active site 1005058001570 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1005058001571 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 1005058001572 FeS/SAM binding site; other site 1005058001573 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1005058001574 ATP binding site [chemical binding]; other site 1005058001575 active site 1005058001576 substrate binding site [chemical binding]; other site 1005058001577 signal recognition particle protein; Provisional; Region: PRK10867 1005058001578 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1005058001579 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1005058001580 P loop; other site 1005058001581 GTP binding site [chemical binding]; other site 1005058001582 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1005058001583 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1005058001584 hypothetical protein; Provisional; Region: PRK11573 1005058001585 Domain of unknown function DUF21; Region: DUF21; pfam01595 1005058001586 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 1005058001587 Transporter associated domain; Region: CorC_HlyC; smart01091 1005058001588 Integrase core domain; Region: rve; pfam00665 1005058001589 Integrase core domain; Region: rve_2; pfam13333 1005058001590 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1005058001591 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1005058001592 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 1005058001593 non-specific DNA binding site [nucleotide binding]; other site 1005058001594 salt bridge; other site 1005058001595 sequence-specific DNA binding site [nucleotide binding]; other site 1005058001596 putative transposase OrfB; Reviewed; Region: PHA02517 1005058001597 HTH-like domain; Region: HTH_21; pfam13276 1005058001598 Integrase core domain; Region: rve; pfam00665 1005058001599 Integrase core domain; Region: rve_2; pfam13333 1005058001600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058001601 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058001602 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058001603 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1005058001604 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1005058001605 dimerization interface [polypeptide binding]; other site 1005058001606 DPS ferroxidase diiron center [ion binding]; other site 1005058001607 ion pore; other site 1005058001608 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1005058001609 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1005058001610 glutamine binding [chemical binding]; other site 1005058001611 catalytic triad [active] 1005058001612 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1005058001613 hypothetical protein; Provisional; Region: PRK07101 1005058001614 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1005058001615 substrate-cofactor binding pocket; other site 1005058001616 homodimer interface [polypeptide binding]; other site 1005058001617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058001618 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1005058001619 L-lactate permease; Region: Lactate_perm; cl00701 1005058001620 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1005058001621 Cysteine-rich domain; Region: CCG; pfam02754 1005058001622 Cysteine-rich domain; Region: CCG; pfam02754 1005058001623 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1005058001624 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1005058001625 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 1005058001626 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1005058001627 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1005058001628 xylulokinase; Provisional; Region: PRK15027 1005058001629 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1005058001630 N- and C-terminal domain interface [polypeptide binding]; other site 1005058001631 active site 1005058001632 MgATP binding site [chemical binding]; other site 1005058001633 catalytic site [active] 1005058001634 metal binding site [ion binding]; metal-binding site 1005058001635 xylulose binding site [chemical binding]; other site 1005058001636 homodimer interface [polypeptide binding]; other site 1005058001637 xylose isomerase; Provisional; Region: PRK05474 1005058001638 xylose isomerase; Region: xylose_isom_A; TIGR02630 1005058001639 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1005058001640 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 1005058001641 putative ligand binding site [chemical binding]; other site 1005058001642 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1005058001643 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005058001644 Walker A/P-loop; other site 1005058001645 ATP binding site [chemical binding]; other site 1005058001646 Q-loop/lid; other site 1005058001647 ABC transporter signature motif; other site 1005058001648 Walker B; other site 1005058001649 D-loop; other site 1005058001650 H-loop/switch region; other site 1005058001651 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005058001652 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005058001653 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 1005058001654 TM-ABC transporter signature motif; other site 1005058001655 xanthine permease; Region: pbuX; TIGR03173 1005058001656 tellurite resistance protein TehB; Provisional; Region: PRK12335 1005058001657 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1005058001658 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 1005058001659 S-adenosylmethionine binding site [chemical binding]; other site 1005058001660 lytic murein transglycosylase; Provisional; Region: PRK11619 1005058001661 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 1005058001662 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005058001663 catalytic residue [active] 1005058001664 Trp operon repressor; Provisional; Region: PRK01381 1005058001665 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1005058001666 Transglycosylase; Region: Transgly; cl17702 1005058001667 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058001668 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058001669 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058001670 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1005058001671 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 1005058001672 Walker A motif; other site 1005058001673 ATP binding site [chemical binding]; other site 1005058001674 Walker B motif; other site 1005058001675 arginine finger; other site 1005058001676 Peptidase family M41; Region: Peptidase_M41; pfam01434 1005058001677 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1005058001678 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 1005058001679 S-adenosylmethionine binding site [chemical binding]; other site 1005058001680 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1005058001681 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 1005058001682 binding surface 1005058001683 TPR motif; other site 1005058001684 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1005058001685 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1005058001686 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1005058001687 dimer interface [polypeptide binding]; other site 1005058001688 FMN binding site [chemical binding]; other site 1005058001689 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1005058001690 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1005058001691 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1005058001692 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1005058001693 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 1005058001694 non-specific DNA binding site [nucleotide binding]; other site 1005058001695 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005058001696 sequence-specific DNA binding site [nucleotide binding]; other site 1005058001697 salt bridge; other site 1005058001698 2TM domain; Region: 2TM; pfam13239 1005058001699 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1005058001700 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1005058001701 Mg++ binding site [ion binding]; other site 1005058001702 putative catalytic motif [active] 1005058001703 substrate binding site [chemical binding]; other site 1005058001704 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1005058001705 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 1005058001706 inhibitor-cofactor binding pocket; inhibition site 1005058001707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058001708 catalytic residue [active] 1005058001709 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1005058001710 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1005058001711 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 1005058001712 protein binding site [polypeptide binding]; other site 1005058001713 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 1005058001714 protein binding site [polypeptide binding]; other site 1005058001715 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1005058001716 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1005058001717 active site 1005058001718 metal binding site [ion binding]; metal-binding site 1005058001719 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1005058001720 sugar phosphate phosphatase; Provisional; Region: PRK10513 1005058001721 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 1005058001722 active site 1005058001723 motif I; other site 1005058001724 motif II; other site 1005058001725 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 1005058001726 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 1005058001727 NAD-dependent deacetylase; Provisional; Region: PRK00481 1005058001728 NAD+ binding site [chemical binding]; other site 1005058001729 substrate binding site [chemical binding]; other site 1005058001730 Zn binding site [ion binding]; other site 1005058001731 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005058001732 YadA-like C-terminal region; Region: YadA; pfam03895 1005058001733 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1005058001734 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1005058001735 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1005058001736 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1005058001737 putative NAD(P) binding site [chemical binding]; other site 1005058001738 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1005058001739 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 1005058001740 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1005058001741 RNA binding surface [nucleotide binding]; other site 1005058001742 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1005058001743 active site 1005058001744 uracil binding [chemical binding]; other site 1005058001745 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 1005058001746 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1005058001747 putative substrate translocation pore; other site 1005058001748 trehalose repressor; Provisional; Region: treR; PRK09492 1005058001749 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058001750 DNA binding site [nucleotide binding] 1005058001751 domain linker motif; other site 1005058001752 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1005058001753 dimerization interface [polypeptide binding]; other site 1005058001754 ligand binding site [chemical binding]; other site 1005058001755 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1005058001756 excinuclease ABC subunit B; Provisional; Region: PRK05298 1005058001757 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 1005058001758 ATP binding site [chemical binding]; other site 1005058001759 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 1005058001760 nucleotide binding region [chemical binding]; other site 1005058001761 ATP-binding site [chemical binding]; other site 1005058001762 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1005058001763 UvrB/uvrC motif; Region: UVR; pfam02151 1005058001764 chaperone protein DnaJ; Provisional; Region: PRK10767 1005058001765 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 1005058001766 HSP70 interaction site [polypeptide binding]; other site 1005058001767 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1005058001768 substrate binding site [polypeptide binding]; other site 1005058001769 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1005058001770 Zn binding sites [ion binding]; other site 1005058001771 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1005058001772 dimer interface [polypeptide binding]; other site 1005058001773 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1005058001774 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1005058001775 nucleotide binding site [chemical binding]; other site 1005058001776 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1005058001777 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1005058001778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1005058001779 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005058001780 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 1005058001781 putative substrate translocation pore; other site 1005058001782 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1005058001783 Cytochrome P450; Region: p450; cl12078 1005058001784 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 1005058001785 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005058001786 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 1005058001787 Transcriptional regulator; Region: Rrf2; cl17282 1005058001788 Rrf2 family protein; Region: rrf2_super; TIGR00738 1005058001789 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 1005058001790 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1005058001791 Ca binding site [ion binding]; other site 1005058001792 active site 1005058001793 catalytic site [active] 1005058001794 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 1005058001795 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1005058001796 active site turn [active] 1005058001797 phosphorylation site [posttranslational modification] 1005058001798 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1005058001799 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1005058001800 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1005058001801 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005058001802 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1005058001803 putative active site [active] 1005058001804 putative metal binding site [ion binding]; other site 1005058001805 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1005058001806 putative acyl-acceptor binding pocket; other site 1005058001807 FtsI repressor; Provisional; Region: PRK10883 1005058001808 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1005058001809 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1005058001810 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1005058001811 DNA binding residues [nucleotide binding] 1005058001812 dimer interface [polypeptide binding]; other site 1005058001813 copper binding site [ion binding]; other site 1005058001814 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 1005058001815 metal-binding site [ion binding] 1005058001816 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 1005058001817 metal-binding site [ion binding] 1005058001818 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1005058001819 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 1005058001820 metal-binding site [ion binding] 1005058001821 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1005058001822 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1005058001823 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058001824 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058001825 Probable transposase; Region: OrfB_IS605; pfam01385 1005058001826 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058001827 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1005058001828 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 1005058001829 predicted active site [active] 1005058001830 catalytic triad [active] 1005058001831 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1005058001832 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1005058001833 active site 1005058001834 multimer interface [polypeptide binding]; other site 1005058001835 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 1005058001836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005058001837 DNA-binding site [nucleotide binding]; DNA binding site 1005058001838 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 1005058001839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058001840 homodimer interface [polypeptide binding]; other site 1005058001841 catalytic residue [active] 1005058001842 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 1005058001843 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1005058001844 metal binding site [ion binding]; metal-binding site 1005058001845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1005058001846 RelB antitoxin; Region: RelB; cl01171 1005058001847 GntP family permease; Region: GntP_permease; pfam02447 1005058001848 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1005058001849 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005058001850 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1005058001851 putative NAD(P) binding site [chemical binding]; other site 1005058001852 active site 1005058001853 putative substrate binding site [chemical binding]; other site 1005058001854 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1005058001855 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1005058001856 Metal-binding active site; metal-binding site 1005058001857 putative aldolase; Validated; Region: PRK08130 1005058001858 intersubunit interface [polypeptide binding]; other site 1005058001859 active site 1005058001860 Zn2+ binding site [ion binding]; other site 1005058001861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1005058001862 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1005058001863 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1005058001864 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1005058001865 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005058001866 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 1005058001867 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 1005058001868 active site 1005058001869 putative interdomain interaction site [polypeptide binding]; other site 1005058001870 putative metal-binding site [ion binding]; other site 1005058001871 putative nucleotide binding site [chemical binding]; other site 1005058001872 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 1005058001873 domain I; other site 1005058001874 DNA binding groove [nucleotide binding] 1005058001875 phosphate binding site [ion binding]; other site 1005058001876 domain II; other site 1005058001877 domain III; other site 1005058001878 nucleotide binding site [chemical binding]; other site 1005058001879 catalytic site [active] 1005058001880 domain IV; other site 1005058001881 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005058001882 trimer interface [polypeptide binding]; other site 1005058001883 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005058001884 trimer interface [polypeptide binding]; other site 1005058001885 YadA-like C-terminal region; Region: YadA; pfam03895 1005058001886 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1005058001887 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1005058001888 GDP-binding site [chemical binding]; other site 1005058001889 ACT binding site; other site 1005058001890 IMP binding site; other site 1005058001891 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 1005058001892 FtsH protease regulator HflC; Provisional; Region: PRK11029 1005058001893 FtsH protease regulator HflK; Provisional; Region: PRK10930 1005058001894 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 1005058001895 EamA-like transporter family; Region: EamA; pfam00892 1005058001896 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005058001897 EamA-like transporter family; Region: EamA; pfam00892 1005058001898 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1005058001899 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1005058001900 GSH binding site [chemical binding]; other site 1005058001901 catalytic residues [active] 1005058001902 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1005058001903 dimer interface [polypeptide binding]; other site 1005058001904 FMN binding site [chemical binding]; other site 1005058001905 NADPH bind site [chemical binding]; other site 1005058001906 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1005058001907 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005058001908 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1005058001909 dinuclear metal binding motif [ion binding]; other site 1005058001910 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1005058001911 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1005058001912 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1005058001913 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005058001914 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1005058001915 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1005058001916 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1005058001917 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1005058001918 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 1005058001919 ATP binding site [chemical binding]; other site 1005058001920 putative Mg++ binding site [ion binding]; other site 1005058001921 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1005058001922 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1005058001923 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 1005058001924 active site 1005058001925 motif I; other site 1005058001926 motif II; other site 1005058001927 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1005058001928 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1005058001929 Walker A/P-loop; other site 1005058001930 ATP binding site [chemical binding]; other site 1005058001931 Q-loop/lid; other site 1005058001932 ABC transporter signature motif; other site 1005058001933 Walker B; other site 1005058001934 D-loop; other site 1005058001935 H-loop/switch region; other site 1005058001936 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 1005058001937 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 1005058001938 dimer interface [polypeptide binding]; other site 1005058001939 conserved gate region; other site 1005058001940 ABC-ATPase subunit interface; other site 1005058001941 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1005058001942 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1005058001943 GAF domain; Region: GAF_2; pfam13185 1005058001944 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1005058001945 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1005058001946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058001947 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 1005058001948 dimerization interface [polypeptide binding]; other site 1005058001949 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1005058001950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005058001951 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1005058001952 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1005058001953 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1005058001954 active site 1005058001955 catalytic site [active] 1005058001956 putative DNA binding site [nucleotide binding]; other site 1005058001957 GIY-YIG motif/motif A; other site 1005058001958 metal binding site [ion binding]; metal-binding site 1005058001959 UvrB/uvrC motif; Region: UVR; pfam02151 1005058001960 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1005058001961 Helix-hairpin-helix motif; Region: HHH; pfam00633 1005058001962 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1005058001963 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1005058001964 Ligand binding site; other site 1005058001965 oligomer interface; other site 1005058001966 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1005058001967 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1005058001968 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1005058001969 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1005058001970 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005058001971 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1005058001972 Walker A/P-loop; other site 1005058001973 ATP binding site [chemical binding]; other site 1005058001974 Q-loop/lid; other site 1005058001975 ABC transporter signature motif; other site 1005058001976 Walker B; other site 1005058001977 D-loop; other site 1005058001978 H-loop/switch region; other site 1005058001979 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1005058001980 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1005058001981 Competence protein; Region: Competence; pfam03772 1005058001982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1005058001983 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1005058001984 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 1005058001985 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1005058001986 active site 1005058001987 NTP binding site [chemical binding]; other site 1005058001988 metal binding triad [ion binding]; metal-binding site 1005058001989 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1005058001990 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1005058001991 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 1005058001992 catalytic center binding site [active] 1005058001993 ATP binding site [chemical binding]; other site 1005058001994 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1005058001995 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1005058001996 metal binding triad; other site 1005058001997 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1005058001998 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1005058001999 metal binding triad; other site 1005058002000 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1005058002001 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1005058002002 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 1005058002003 substrate binding site [chemical binding]; other site 1005058002004 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1005058002005 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1005058002006 substrate binding site [chemical binding]; other site 1005058002007 ligand binding site [chemical binding]; other site 1005058002008 tartrate dehydrogenase; Region: TTC; TIGR02089 1005058002009 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1005058002010 2-isopropylmalate synthase; Validated; Region: PRK00915 1005058002011 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1005058002012 active site 1005058002013 catalytic residues [active] 1005058002014 metal binding site [ion binding]; metal-binding site 1005058002015 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1005058002016 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1005058002017 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1005058002018 Helicase; Region: Helicase_RecD; pfam05127 1005058002019 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1005058002020 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 1005058002021 metal-binding heat shock protein; Provisional; Region: PRK00016 1005058002022 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1005058002023 PhoH-like protein; Region: PhoH; pfam02562 1005058002024 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1005058002025 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1005058002026 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005058002027 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 1005058002028 triosephosphate isomerase; Provisional; Region: PRK14567 1005058002029 substrate binding site [chemical binding]; other site 1005058002030 dimer interface [polypeptide binding]; other site 1005058002031 catalytic triad [active] 1005058002032 RNA methyltransferase, RsmE family; Region: TIGR00046 1005058002033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1005058002034 hypothetical protein; Validated; Region: PRK00228 1005058002035 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1005058002036 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 1005058002037 dimer interface [polypeptide binding]; other site 1005058002038 conserved gate region; other site 1005058002039 putative PBP binding loops; other site 1005058002040 ABC-ATPase subunit interface; other site 1005058002041 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005058002042 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 1005058002043 dimer interface [polypeptide binding]; other site 1005058002044 conserved gate region; other site 1005058002045 putative PBP binding loops; other site 1005058002046 ABC-ATPase subunit interface; other site 1005058002047 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1005058002048 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 1005058002049 substrate binding pocket [chemical binding]; other site 1005058002050 membrane-bound complex binding site; other site 1005058002051 hinge residues; other site 1005058002052 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1005058002053 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1005058002054 Walker A/P-loop; other site 1005058002055 ATP binding site [chemical binding]; other site 1005058002056 Q-loop/lid; other site 1005058002057 ABC transporter signature motif; other site 1005058002058 Walker B; other site 1005058002059 D-loop; other site 1005058002060 H-loop/switch region; other site 1005058002061 hypothetical protein; Provisional; Region: PRK07206 1005058002062 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1005058002063 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 1005058002064 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1005058002065 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 1005058002066 dimer interface [polypeptide binding]; other site 1005058002067 active site 1005058002068 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1005058002069 folate binding site [chemical binding]; other site 1005058002070 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1005058002071 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1005058002072 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1005058002073 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1005058002074 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1005058002075 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 1005058002076 purine monophosphate binding site [chemical binding]; other site 1005058002077 dimer interface [polypeptide binding]; other site 1005058002078 putative catalytic residues [active] 1005058002079 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1005058002080 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1005058002081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1005058002082 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1005058002083 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1005058002084 Sulfatase; Region: Sulfatase; pfam00884 1005058002085 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1005058002086 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 1005058002087 active site 1005058002088 dimer interface [polypeptide binding]; other site 1005058002089 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 1005058002090 dimer interface [polypeptide binding]; other site 1005058002091 active site 1005058002092 alanine racemase; Reviewed; Region: alr; PRK00053 1005058002093 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1005058002094 active site 1005058002095 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005058002096 substrate binding site [chemical binding]; other site 1005058002097 catalytic residues [active] 1005058002098 dimer interface [polypeptide binding]; other site 1005058002099 replicative DNA helicase; Region: DnaB; TIGR00665 1005058002100 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1005058002101 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 1005058002102 Walker A motif; other site 1005058002103 ATP binding site [chemical binding]; other site 1005058002104 Walker B motif; other site 1005058002105 DNA binding loops [nucleotide binding] 1005058002106 argininosuccinate synthase; Validated; Region: PRK05370 1005058002107 argininosuccinate synthase; Provisional; Region: PRK13820 1005058002108 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005058002109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058002110 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 1005058002111 dimerization interface [polypeptide binding]; other site 1005058002112 substrate binding pocket [chemical binding]; other site 1005058002113 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1005058002114 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1005058002115 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1005058002116 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1005058002117 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1005058002118 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1005058002119 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1005058002120 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 1005058002121 glutaminase active site [active] 1005058002122 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 1005058002123 dimer interface [polypeptide binding]; other site 1005058002124 active site 1005058002125 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 1005058002126 dimer interface [polypeptide binding]; other site 1005058002127 active site 1005058002128 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1005058002129 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1005058002130 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005058002131 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005058002132 trimer interface [polypeptide binding]; other site 1005058002133 Haemagglutinin; Region: HIM; pfam05662 1005058002134 YadA-like C-terminal region; Region: YadA; pfam03895 1005058002135 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1005058002136 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 1005058002137 catalytic loop [active] 1005058002138 iron binding site [ion binding]; other site 1005058002139 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1005058002140 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1005058002141 active site 1005058002142 fructokinase; Reviewed; Region: PRK09557 1005058002143 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1005058002144 nucleotide binding site [chemical binding]; other site 1005058002145 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1005058002146 dimerization interface [polypeptide binding]; other site 1005058002147 active site 1005058002148 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_31; cd04690 1005058002149 nudix motif; other site 1005058002150 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 1005058002151 ArsC family; Region: ArsC; pfam03960 1005058002152 putative catalytic residues [active] 1005058002153 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1005058002154 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1005058002155 metal binding site [ion binding]; metal-binding site 1005058002156 dimer interface [polypeptide binding]; other site 1005058002157 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1005058002158 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1005058002159 hypothetical protein; Provisional; Region: PRK05421 1005058002160 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1005058002161 cytidylate kinase; Provisional; Region: cmk; PRK00023 1005058002162 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 1005058002163 CMP-binding site; other site 1005058002164 The sites determining sugar specificity; other site 1005058002165 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1005058002166 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 1005058002167 RNA binding site [nucleotide binding]; other site 1005058002168 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 1005058002169 RNA binding site [nucleotide binding]; other site 1005058002170 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 1005058002171 RNA binding site [nucleotide binding]; other site 1005058002172 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1005058002173 RNA binding site [nucleotide binding]; other site 1005058002174 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 1005058002175 RNA binding site [nucleotide binding]; other site 1005058002176 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1005058002177 RNA binding site [nucleotide binding]; other site 1005058002178 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 1005058002179 IHF dimer interface [polypeptide binding]; other site 1005058002180 IHF - DNA interface [nucleotide binding]; other site 1005058002181 Predicted membrane protein [Function unknown]; Region: COG2364 1005058002182 Fic/DOC family; Region: Fic; pfam02661 1005058002183 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1005058002184 FIC domain binding interface [polypeptide binding]; other site 1005058002185 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1005058002186 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1005058002187 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1005058002188 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 1005058002189 binding surface 1005058002190 TPR motif; other site 1005058002191 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 1005058002192 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 1005058002193 active site 1005058002194 dimer interface [polypeptide binding]; other site 1005058002195 translation initiation factor Sui1; Validated; Region: PRK06824 1005058002196 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1005058002197 putative rRNA binding site [nucleotide binding]; other site 1005058002198 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1005058002199 amphipathic channel; other site 1005058002200 Asn-Pro-Ala signature motifs; other site 1005058002201 glycerol kinase; Provisional; Region: glpK; PRK00047 1005058002202 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1005058002203 N- and C-terminal domain interface [polypeptide binding]; other site 1005058002204 active site 1005058002205 MgATP binding site [chemical binding]; other site 1005058002206 catalytic site [active] 1005058002207 metal binding site [ion binding]; metal-binding site 1005058002208 glycerol binding site [chemical binding]; other site 1005058002209 homotetramer interface [polypeptide binding]; other site 1005058002210 homodimer interface [polypeptide binding]; other site 1005058002211 FBP binding site [chemical binding]; other site 1005058002212 protein IIAGlc interface [polypeptide binding]; other site 1005058002213 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1005058002214 putative transporter; Provisional; Region: PRK10484 1005058002215 Na binding site [ion binding]; other site 1005058002216 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1005058002217 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1005058002218 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1005058002219 Glutamate binding site [chemical binding]; other site 1005058002220 NAD binding site [chemical binding]; other site 1005058002221 catalytic residues [active] 1005058002222 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005058002223 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1005058002224 peptide binding site [polypeptide binding]; other site 1005058002225 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1005058002226 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 1005058002227 dimer interface [polypeptide binding]; other site 1005058002228 conserved gate region; other site 1005058002229 putative PBP binding loops; other site 1005058002230 ABC-ATPase subunit interface; other site 1005058002231 dipeptide transporter; Provisional; Region: PRK10913 1005058002232 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1005058002233 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 1005058002234 dimer interface [polypeptide binding]; other site 1005058002235 conserved gate region; other site 1005058002236 putative PBP binding loops; other site 1005058002237 ABC-ATPase subunit interface; other site 1005058002238 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1005058002239 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005058002240 Walker A/P-loop; other site 1005058002241 ATP binding site [chemical binding]; other site 1005058002242 Q-loop/lid; other site 1005058002243 ABC transporter signature motif; other site 1005058002244 Walker B; other site 1005058002245 D-loop; other site 1005058002246 H-loop/switch region; other site 1005058002247 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005058002248 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1005058002249 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005058002250 Walker A/P-loop; other site 1005058002251 ATP binding site [chemical binding]; other site 1005058002252 Q-loop/lid; other site 1005058002253 ABC transporter signature motif; other site 1005058002254 Walker B; other site 1005058002255 D-loop; other site 1005058002256 H-loop/switch region; other site 1005058002257 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1005058002258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058002259 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058002260 Probable transposase; Region: OrfB_IS605; pfam01385 1005058002261 EamA-like transporter family; Region: EamA; cl17759 1005058002262 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005058002263 EamA-like transporter family; Region: EamA; pfam00892 1005058002264 phosphogluconate dehydratase; Validated; Region: PRK09054 1005058002265 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1005058002266 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 1005058002267 Shikimate kinase; Region: SKI; pfam01202 1005058002268 ATP-binding site [chemical binding]; other site 1005058002269 Gluconate-6-phosphate binding site [chemical binding]; other site 1005058002270 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1005058002271 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1005058002272 Protein of unknown function, DUF486; Region: DUF486; cl01236 1005058002273 Hemerythrin-like domain; Region: Hr-like; cd12108 1005058002274 Fe binding site [ion binding]; other site 1005058002275 Pirin-related protein [General function prediction only]; Region: COG1741 1005058002276 Pirin; Region: Pirin; pfam02678 1005058002277 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1005058002278 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1005058002279 Predicted transcriptional regulators [Transcription]; Region: COG1733 1005058002280 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1005058002281 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1005058002282 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005058002283 putative chaperone protein EcpD; Provisional; Region: PRK09926 1005058002284 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1005058002285 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1005058002286 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1005058002287 PapC N-terminal domain; Region: PapC_N; pfam13954 1005058002288 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1005058002289 PapC C-terminal domain; Region: PapC_C; pfam13953 1005058002290 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005058002291 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1005058002292 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1005058002293 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1005058002294 Protein of unknown function (DUF986); Region: DUF986; cl01983 1005058002295 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 1005058002296 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1005058002297 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1005058002298 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1005058002299 active pocket/dimerization site; other site 1005058002300 active site 1005058002301 phosphorylation site [posttranslational modification] 1005058002302 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cd00001 1005058002303 active site 1005058002304 phosphorylation site [posttranslational modification] 1005058002305 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1005058002306 Iron-sulfur protein interface; other site 1005058002307 proximal quinone binding site [chemical binding]; other site 1005058002308 C-subunit interface; other site 1005058002309 distal quinone binding site; other site 1005058002310 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1005058002311 D-subunit interface [polypeptide binding]; other site 1005058002312 Iron-sulfur protein interface; other site 1005058002313 proximal quinone binding site [chemical binding]; other site 1005058002314 distal quinone binding site [chemical binding]; other site 1005058002315 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1005058002316 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1005058002317 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1005058002318 L-aspartate oxidase; Provisional; Region: PRK06175 1005058002319 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1005058002320 LexA repressor; Validated; Region: PRK00215 1005058002321 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1005058002322 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 1005058002323 Catalytic site [active] 1005058002324 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1005058002325 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1005058002326 putative acyl-acceptor binding pocket; other site 1005058002327 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1005058002328 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1005058002329 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1005058002330 fatty acid metabolism regulator; Provisional; Region: PRK04984 1005058002331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005058002332 DNA-binding site [nucleotide binding]; DNA binding site 1005058002333 FadR C-terminal domain; Region: FadR_C; pfam07840 1005058002334 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1005058002335 disulfide bond formation protein B; Provisional; Region: PRK01749 1005058002336 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1005058002337 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 1005058002338 putative active site [active] 1005058002339 heme pocket [chemical binding]; other site 1005058002340 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 1005058002341 dimer interface [polypeptide binding]; other site 1005058002342 phosphorylation site [posttranslational modification] 1005058002343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058002344 ATP binding site [chemical binding]; other site 1005058002345 Mg2+ binding site [ion binding]; other site 1005058002346 G-X-G motif; other site 1005058002347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058002348 active site 1005058002349 phosphorylation site [posttranslational modification] 1005058002350 intermolecular recognition site; other site 1005058002351 dimerization interface [polypeptide binding]; other site 1005058002352 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 1005058002353 putative binding surface; other site 1005058002354 active site 1005058002355 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1005058002356 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 1005058002357 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1005058002358 substrate binding site [chemical binding]; other site 1005058002359 oxyanion hole (OAH) forming residues; other site 1005058002360 trimer interface [polypeptide binding]; other site 1005058002361 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1005058002362 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 1005058002363 trimer interface [polypeptide binding]; other site 1005058002364 putative metal binding site [ion binding]; other site 1005058002365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058002366 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058002367 Probable transposase; Region: OrfB_IS605; pfam01385 1005058002368 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058002369 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1005058002370 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1005058002371 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1005058002372 DALR anticodon binding domain; Region: DALR_1; pfam05746 1005058002373 anticodon binding site; other site 1005058002374 tRNA binding surface [nucleotide binding]; other site 1005058002375 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1005058002376 putative active site [active] 1005058002377 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1005058002378 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1005058002379 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1005058002380 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1005058002381 heme-binding site [chemical binding]; other site 1005058002382 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 1005058002383 dimer interface [polypeptide binding]; other site 1005058002384 motif 1; other site 1005058002385 active site 1005058002386 motif 2; other site 1005058002387 motif 3; other site 1005058002388 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1005058002389 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1005058002390 active site 1005058002391 trimer interface [polypeptide binding]; other site 1005058002392 allosteric site; other site 1005058002393 active site lid [active] 1005058002394 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1005058002395 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1005058002396 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1005058002397 active site 1005058002398 dimer interface [polypeptide binding]; other site 1005058002399 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1005058002400 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005058002401 putative NAD(P) binding site [chemical binding]; other site 1005058002402 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1005058002403 trigger factor; Provisional; Region: tig; PRK01490 1005058002404 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005058002405 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1005058002406 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1005058002407 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1005058002408 oligomer interface [polypeptide binding]; other site 1005058002409 active site residues [active] 1005058002410 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1005058002411 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1005058002412 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 1005058002413 Walker A motif; other site 1005058002414 ATP binding site [chemical binding]; other site 1005058002415 Walker B motif; other site 1005058002416 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1005058002417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1005058002418 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1005058002419 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1005058002420 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1005058002421 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 1005058002422 active site 1005058002423 phosphorylation site [posttranslational modification] 1005058002424 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 1005058002425 dimerization domain swap beta strand [polypeptide binding]; other site 1005058002426 regulatory protein interface [polypeptide binding]; other site 1005058002427 active site 1005058002428 regulatory phosphorylation site [posttranslational modification]; other site 1005058002429 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1005058002430 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1005058002431 putative substrate binding site [chemical binding]; other site 1005058002432 putative ATP binding site [chemical binding]; other site 1005058002433 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1005058002434 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1005058002435 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 1005058002436 active site 1005058002437 P-loop; other site 1005058002438 phosphorylation site [posttranslational modification] 1005058002439 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1005058002440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005058002441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058002442 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 1005058002443 putative effector binding pocket; other site 1005058002444 dimerization interface [polypeptide binding]; other site 1005058002445 Predicted membrane protein [Function unknown]; Region: COG2259 1005058002446 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005058002447 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1005058002448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058002449 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058002450 Probable transposase; Region: OrfB_IS605; pfam01385 1005058002451 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058002452 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1005058002453 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005058002454 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1005058002455 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 1005058002456 active site 1005058002457 dimer interface [polypeptide binding]; other site 1005058002458 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 1005058002459 Ligand Binding Site [chemical binding]; other site 1005058002460 Molecular Tunnel; other site 1005058002461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058002462 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058002463 Probable transposase; Region: OrfB_IS605; pfam01385 1005058002464 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058002465 Transposase IS200 like; Region: Y1_Tnp; cl00848 1005058002466 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005058002467 putative chaperone protein EcpD; Provisional; Region: PRK09926 1005058002468 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1005058002469 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1005058002470 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1005058002471 PapC N-terminal domain; Region: PapC_N; pfam13954 1005058002472 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1005058002473 PapC C-terminal domain; Region: PapC_C; pfam13953 1005058002474 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005058002475 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1005058002476 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1005058002477 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1005058002478 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1005058002479 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1005058002480 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1005058002481 active site 1005058002482 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058002483 Transposase; Region: HTH_Tnp_1; pfam01527 1005058002484 HTH-like domain; Region: HTH_21; pfam13276 1005058002485 Integrase core domain; Region: rve; pfam00665 1005058002486 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058002487 Integrase core domain; Region: rve_3; pfam13683 1005058002488 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 1005058002489 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1005058002490 putative metal binding site [ion binding]; other site 1005058002491 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1005058002492 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1005058002493 putative metal binding site [ion binding]; other site 1005058002494 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1005058002495 substrate binding site [chemical binding]; other site 1005058002496 activation loop (A-loop); other site 1005058002497 Protein phosphatase 2C; Region: PP2C_2; pfam13672 1005058002498 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1005058002499 metal ion-dependent adhesion site (MIDAS); other site 1005058002500 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1005058002501 metal ion-dependent adhesion site (MIDAS); other site 1005058002502 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 1005058002503 metal ion-dependent adhesion site (MIDAS); other site 1005058002504 Integral membrane protein TerC family; Region: TerC; cl10468 1005058002505 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1005058002506 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 1005058002507 ring oligomerisation interface [polypeptide binding]; other site 1005058002508 ATP/Mg binding site [chemical binding]; other site 1005058002509 stacking interactions; other site 1005058002510 hinge regions; other site 1005058002511 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 1005058002512 oligomerisation interface [polypeptide binding]; other site 1005058002513 mobile loop; other site 1005058002514 roof hairpin; other site 1005058002515 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1005058002516 Aspartase; Region: Aspartase; cd01357 1005058002517 active sites [active] 1005058002518 tetramer interface [polypeptide binding]; other site 1005058002519 DNA polymerase I; Provisional; Region: PRK05755 1005058002520 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1005058002521 active site 1005058002522 metal binding site 1 [ion binding]; metal-binding site 1005058002523 putative 5' ssDNA interaction site; other site 1005058002524 metal binding site 3; metal-binding site 1005058002525 metal binding site 2 [ion binding]; metal-binding site 1005058002526 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1005058002527 putative DNA binding site [nucleotide binding]; other site 1005058002528 putative metal binding site [ion binding]; other site 1005058002529 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 1005058002530 active site 1005058002531 catalytic site [active] 1005058002532 substrate binding site [chemical binding]; other site 1005058002533 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1005058002534 active site 1005058002535 DNA binding site [nucleotide binding] 1005058002536 catalytic site [active] 1005058002537 uridine phosphorylase; Provisional; Region: PRK11178 1005058002538 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1005058002539 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1005058002540 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 1005058002541 dimerization interface [polypeptide binding]; other site 1005058002542 putative DNA binding site [nucleotide binding]; other site 1005058002543 putative Zn2+ binding site [ion binding]; other site 1005058002544 AsnC family; Region: AsnC_trans_reg; pfam01037 1005058002545 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005058002546 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1005058002547 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005058002548 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1005058002549 proline aminopeptidase P II; Provisional; Region: PRK10879 1005058002550 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1005058002551 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 1005058002552 active site 1005058002553 hypothetical protein; Reviewed; Region: PRK01736 1005058002554 Cell division protein ZapA; Region: ZapA; pfam05164 1005058002555 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1005058002556 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1005058002557 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1005058002558 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 1005058002559 homodimer interface [polypeptide binding]; other site 1005058002560 oligonucleotide binding site [chemical binding]; other site 1005058002561 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1005058002562 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1005058002563 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 1005058002564 RNA binding surface [nucleotide binding]; other site 1005058002565 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1005058002566 active site 1005058002567 recombination protein F; Reviewed; Region: recF; PRK00064 1005058002568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058002569 Walker A/P-loop; other site 1005058002570 ATP binding site [chemical binding]; other site 1005058002571 Q-loop/lid; other site 1005058002572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058002573 ABC transporter signature motif; other site 1005058002574 Walker B; other site 1005058002575 D-loop; other site 1005058002576 H-loop/switch region; other site 1005058002577 DNA polymerase III subunit beta; Validated; Region: PRK05643 1005058002578 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 1005058002579 putative DNA binding surface [nucleotide binding]; other site 1005058002580 dimer interface [polypeptide binding]; other site 1005058002581 beta-clamp/clamp loader binding surface; other site 1005058002582 beta-clamp/translesion DNA polymerase binding surface; other site 1005058002583 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1005058002584 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1005058002585 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 1005058002586 Walker A motif; other site 1005058002587 ATP binding site [chemical binding]; other site 1005058002588 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 1005058002589 Walker B motif; other site 1005058002590 arginine finger; other site 1005058002591 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 1005058002592 DnaA box-binding interface [nucleotide binding]; other site 1005058002593 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1005058002594 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1005058002595 membrane protein insertase; Provisional; Region: PRK01318 1005058002596 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1005058002597 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1005058002598 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1005058002599 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1005058002600 G1 box; other site 1005058002601 GTP/Mg2+ binding site [chemical binding]; other site 1005058002602 Switch I region; other site 1005058002603 G2 box; other site 1005058002604 Switch II region; other site 1005058002605 G3 box; other site 1005058002606 G4 box; other site 1005058002607 G5 box; other site 1005058002608 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1005058002609 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1005058002610 amino acid carrier protein; Region: agcS; TIGR00835 1005058002611 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 1005058002612 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1005058002613 nucleotide binding site [chemical binding]; other site 1005058002614 substrate binding site [chemical binding]; other site 1005058002615 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1005058002616 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1005058002617 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1005058002618 dimerization interface [polypeptide binding]; other site 1005058002619 DNA binding site [nucleotide binding] 1005058002620 corepressor binding sites; other site 1005058002621 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 1005058002622 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1005058002623 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1005058002624 G1 box; other site 1005058002625 GTP/Mg2+ binding site [chemical binding]; other site 1005058002626 Switch I region; other site 1005058002627 G2 box; other site 1005058002628 G3 box; other site 1005058002629 Switch II region; other site 1005058002630 G4 box; other site 1005058002631 G5 box; other site 1005058002632 Nucleoside recognition; Region: Gate; pfam07670 1005058002633 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1005058002634 Nucleoside recognition; Region: Gate; pfam07670 1005058002635 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1005058002636 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1005058002637 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1005058002638 DctM-like transporters; Region: DctM; pfam06808 1005058002639 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1005058002640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1005058002641 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1005058002642 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1005058002643 active site 1005058002644 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005058002645 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 1005058002646 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 1005058002647 S-adenosylmethionine binding site [chemical binding]; other site 1005058002648 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1005058002649 Predicted membrane protein [Function unknown]; Region: COG2860 1005058002650 UPF0126 domain; Region: UPF0126; pfam03458 1005058002651 UPF0126 domain; Region: UPF0126; pfam03458 1005058002652 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1005058002653 DNA ligase; Provisional; Region: PRK09125 1005058002654 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1005058002655 DNA binding site [nucleotide binding] 1005058002656 active site 1005058002657 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1005058002658 DNA binding site [nucleotide binding] 1005058002659 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1005058002660 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 1005058002661 dimer interface [polypeptide binding]; other site 1005058002662 putative anticodon binding site; other site 1005058002663 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 1005058002664 motif 1; other site 1005058002665 active site 1005058002666 motif 2; other site 1005058002667 motif 3; other site 1005058002668 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1005058002669 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1005058002670 RF-1 domain; Region: RF-1; pfam00472 1005058002671 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1005058002672 hypothetical protein; Validated; Region: PRK05445 1005058002673 VacJ like lipoprotein; Region: VacJ; cl01073 1005058002674 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 1005058002675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1005058002676 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1005058002677 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1005058002678 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1005058002679 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1005058002680 catalytic site [active] 1005058002681 subunit interface [polypeptide binding]; other site 1005058002682 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1005058002683 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005058002684 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1005058002685 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1005058002686 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005058002687 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005058002688 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 1005058002689 IMP binding site; other site 1005058002690 dimer interface [polypeptide binding]; other site 1005058002691 interdomain contacts; other site 1005058002692 partial ornithine binding site; other site 1005058002693 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1005058002694 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1005058002695 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058002696 active site 1005058002697 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1005058002698 SurA N-terminal domain; Region: SurA_N; pfam09312 1005058002699 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1005058002700 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1005058002701 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 1005058002702 S-adenosylmethionine binding site [chemical binding]; other site 1005058002703 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1005058002704 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1005058002705 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1005058002706 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1005058002707 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1005058002708 active site 1005058002709 metal binding site [ion binding]; metal-binding site 1005058002710 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 1005058002711 IHF dimer interface [polypeptide binding]; other site 1005058002712 IHF - DNA interface [nucleotide binding]; other site 1005058002713 Protein of unknown function (DUF416); Region: DUF416; cl01166 1005058002714 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 1005058002715 substrate binding site [chemical binding]; other site 1005058002716 active site 1005058002717 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1005058002718 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1005058002719 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1005058002720 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1005058002721 putative NADH binding site [chemical binding]; other site 1005058002722 putative active site [active] 1005058002723 nudix motif; other site 1005058002724 putative metal binding site [ion binding]; other site 1005058002725 hypothetical protein; Provisional; Region: PRK01752 1005058002726 SEC-C motif; Region: SEC-C; pfam02810 1005058002727 SEC-C motif; Region: SEC-C; pfam02810 1005058002728 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1005058002729 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1005058002730 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 1005058002731 glutamate racemase; Provisional; Region: PRK00865 1005058002732 Chorismate lyase; Region: Chor_lyase; cl01230 1005058002733 Y-family of DNA polymerases; Region: PolY; cl12025 1005058002734 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1005058002735 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 1005058002736 generic binding surface II; other site 1005058002737 ssDNA binding site; other site 1005058002738 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 1005058002739 ATP binding site [chemical binding]; other site 1005058002740 putative Mg++ binding site [ion binding]; other site 1005058002741 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 1005058002742 nucleotide binding region [chemical binding]; other site 1005058002743 ATP-binding site [chemical binding]; other site 1005058002744 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1005058002745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005058002746 Zn2+ binding site [ion binding]; other site 1005058002747 Mg2+ binding site [ion binding]; other site 1005058002748 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1005058002749 synthetase active site [active] 1005058002750 NTP binding site [chemical binding]; other site 1005058002751 metal binding site [ion binding]; metal-binding site 1005058002752 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 1005058002753 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1005058002754 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1005058002755 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1005058002756 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 1005058002757 catalytic site [active] 1005058002758 G-X2-G-X-G-K; other site 1005058002759 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1005058002760 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1005058002761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058002762 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058002763 ABC transporter; Region: ABC_tran_2; pfam12848 1005058002764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058002765 UGMP family protein; Validated; Region: PRK09604 1005058002766 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1005058002767 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1005058002768 DNA primase; Validated; Region: dnaG; PRK05667 1005058002769 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1005058002770 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1005058002771 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 1005058002772 active site 1005058002773 metal binding site [ion binding]; metal-binding site 1005058002774 interdomain interaction site; other site 1005058002775 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1005058002776 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1005058002777 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1005058002778 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1005058002779 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1005058002780 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1005058002781 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005058002782 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1005058002783 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 1005058002784 DNA binding residues [nucleotide binding] 1005058002785 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1005058002786 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1005058002787 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1005058002788 active site 1005058002789 P-loop; other site 1005058002790 phosphorylation site [posttranslational modification] 1005058002791 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 1005058002792 active site 1005058002793 phosphorylation site [posttranslational modification] 1005058002794 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1005058002795 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1005058002796 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1005058002797 Mannitol repressor; Region: MtlR; cl11450 1005058002798 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1005058002799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058002800 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1005058002801 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1005058002802 putative dimerization interface [polypeptide binding]; other site 1005058002803 ketol-acid reductoisomerase; Validated; Region: PRK05225 1005058002804 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1005058002805 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1005058002806 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1005058002807 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1005058002808 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1005058002809 Iron permease FTR1 family; Region: FTR1; cl00475 1005058002810 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1005058002811 Imelysin; Region: Peptidase_M75; pfam09375 1005058002812 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1005058002813 Part of AAA domain; Region: AAA_19; pfam13245 1005058002814 Family description; Region: UvrD_C_2; pfam13538 1005058002815 elongation factor Tu; Reviewed; Region: PRK00049 1005058002816 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1005058002817 G1 box; other site 1005058002818 GEF interaction site [polypeptide binding]; other site 1005058002819 GTP/Mg2+ binding site [chemical binding]; other site 1005058002820 Switch I region; other site 1005058002821 G2 box; other site 1005058002822 G3 box; other site 1005058002823 Switch II region; other site 1005058002824 G4 box; other site 1005058002825 G5 box; other site 1005058002826 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 1005058002827 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 1005058002828 Antibiotic Binding Site [chemical binding]; other site 1005058002829 elongation factor G; Reviewed; Region: PRK00007 1005058002830 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1005058002831 G1 box; other site 1005058002832 putative GEF interaction site [polypeptide binding]; other site 1005058002833 GTP/Mg2+ binding site [chemical binding]; other site 1005058002834 Switch I region; other site 1005058002835 G2 box; other site 1005058002836 G3 box; other site 1005058002837 Switch II region; other site 1005058002838 G4 box; other site 1005058002839 G5 box; other site 1005058002840 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 1005058002841 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 1005058002842 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 1005058002843 30S ribosomal protein S7; Validated; Region: PRK05302 1005058002844 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 1005058002845 S17 interaction site [polypeptide binding]; other site 1005058002846 S8 interaction site; other site 1005058002847 16S rRNA interaction site [nucleotide binding]; other site 1005058002848 streptomycin interaction site [chemical binding]; other site 1005058002849 23S rRNA interaction site [nucleotide binding]; other site 1005058002850 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1005058002851 DsrH like protein; Region: DsrH; cl17347 1005058002852 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1005058002853 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1005058002854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1005058002855 YheO-like PAS domain; Region: PAS_6; pfam08348 1005058002856 HTH domain; Region: HTH_22; pfam13309 1005058002857 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1005058002858 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1005058002859 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005058002860 SlyX; Region: SlyX; cl01090 1005058002861 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 1005058002862 Ligand Binding Site [chemical binding]; other site 1005058002863 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1005058002864 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1005058002865 homodimer interface [polypeptide binding]; other site 1005058002866 metal binding site [ion binding]; metal-binding site 1005058002867 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1005058002868 homodimer interface [polypeptide binding]; other site 1005058002869 active site 1005058002870 putative chemical substrate binding site [chemical binding]; other site 1005058002871 metal binding site [ion binding]; metal-binding site 1005058002872 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1005058002873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005058002874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058002875 Walker A/P-loop; other site 1005058002876 ATP binding site [chemical binding]; other site 1005058002877 Q-loop/lid; other site 1005058002878 ABC transporter signature motif; other site 1005058002879 Walker B; other site 1005058002880 D-loop; other site 1005058002881 H-loop/switch region; other site 1005058002882 putative metal dependent hydrolase; Provisional; Region: PRK11598 1005058002883 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1005058002884 Sulfatase; Region: Sulfatase; pfam00884 1005058002885 Sulfatase; Region: Sulfatase; cl17466 1005058002886 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1005058002887 putative transporter; Provisional; Region: PRK10484 1005058002888 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1005058002889 Na binding site [ion binding]; other site 1005058002890 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1005058002891 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 1005058002892 FeS/SAM binding site; other site 1005058002893 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1005058002894 Predicted permeases [General function prediction only]; Region: COG0730 1005058002895 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1005058002896 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1005058002897 nucleotide binding site [chemical binding]; other site 1005058002898 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 1005058002899 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1005058002900 ligand binding site [chemical binding]; other site 1005058002901 flexible hinge region; other site 1005058002902 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1005058002903 non-specific DNA interactions [nucleotide binding]; other site 1005058002904 DNA binding site [nucleotide binding] 1005058002905 sequence specific DNA binding site [nucleotide binding]; other site 1005058002906 putative cAMP binding site [chemical binding]; other site 1005058002907 Hemerythrin-like domain; Region: Hr-like; cd12108 1005058002908 Fe binding site [ion binding]; other site 1005058002909 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1005058002910 Domain of unknown function DUF21; Region: DUF21; pfam01595 1005058002911 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 1005058002912 Transporter associated domain; Region: CorC_HlyC; smart01091 1005058002913 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_2; cd07253 1005058002914 dimer interface [polypeptide binding]; other site 1005058002915 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005058002916 metal binding site [ion binding]; metal-binding site 1005058002917 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1005058002918 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1005058002919 UbiA prenyltransferase family; Region: UbiA; pfam01040 1005058002920 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1005058002921 homodimer interaction site [polypeptide binding]; other site 1005058002922 cofactor binding site; other site 1005058002923 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005058002924 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 1005058002925 S-adenosylmethionine binding site [chemical binding]; other site 1005058002926 CUT domain; Region: CUT; pfam02376 1005058002927 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1005058002928 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 1005058002929 ligand binding site [chemical binding]; other site 1005058002930 flexible hinge region; other site 1005058002931 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 1005058002932 putative switch regulator; other site 1005058002933 non-specific DNA interactions [nucleotide binding]; other site 1005058002934 DNA binding site [nucleotide binding] 1005058002935 sequence specific DNA binding site [nucleotide binding]; other site 1005058002936 putative cAMP binding site [chemical binding]; other site 1005058002937 hypothetical protein; Provisional; Region: PRK04966 1005058002938 division inhibitor protein; Provisional; Region: slmA; PRK09480 1005058002939 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005058002940 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1005058002941 trimer interface [polypeptide binding]; other site 1005058002942 active site 1005058002943 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1005058002944 Flavoprotein; Region: Flavoprotein; pfam02441 1005058002945 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1005058002946 hypothetical protein; Reviewed; Region: PRK00024 1005058002947 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1005058002948 MPN+ (JAMM) motif; other site 1005058002949 Zinc-binding site [ion binding]; other site 1005058002950 heat shock protein 90; Provisional; Region: PRK05218 1005058002951 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058002952 ATP binding site [chemical binding]; other site 1005058002953 Mg2+ binding site [ion binding]; other site 1005058002954 G-X-G motif; other site 1005058002955 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1005058002956 hypothetical protein; Provisional; Region: PRK04860 1005058002957 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1005058002958 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1005058002959 Clp amino terminal domain; Region: Clp_N; pfam02861 1005058002960 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 1005058002961 Walker A motif; other site 1005058002962 ATP binding site [chemical binding]; other site 1005058002963 Walker B motif; other site 1005058002964 arginine finger; other site 1005058002965 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 1005058002966 Walker A motif; other site 1005058002967 ATP binding site [chemical binding]; other site 1005058002968 Walker B motif; other site 1005058002969 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1005058002970 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1005058002971 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1005058002972 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 1005058002973 ATP binding site [chemical binding]; other site 1005058002974 putative Mg++ binding site [ion binding]; other site 1005058002975 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 1005058002976 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1005058002977 AAA domain; Region: AAA_21; pfam13304 1005058002978 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1005058002979 putative active site [active] 1005058002980 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 1005058002981 GIY-YIG motif/motif A; other site 1005058002982 putative active site [active] 1005058002983 putative metal binding site [ion binding]; other site 1005058002984 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1005058002985 Virulence protein [General function prediction only]; Region: COG3943 1005058002986 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1005058002987 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005058002988 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1005058002989 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005058002990 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1005058002991 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1005058002992 Int/Topo IB signature motif; other site 1005058002993 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1005058002994 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1005058002995 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1005058002996 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 1005058002997 RNA binding site [nucleotide binding]; other site 1005058002998 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1005058002999 benzoate transport; Region: 2A0115; TIGR00895 1005058003000 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 1005058003001 putative substrate translocation pore; other site 1005058003002 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1005058003003 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1005058003004 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 1005058003005 ATP binding site [chemical binding]; other site 1005058003006 putative Mg++ binding site [ion binding]; other site 1005058003007 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1005058003008 Divergent AAA domain; Region: AAA_4; pfam04326 1005058003009 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1005058003010 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 1005058003011 putative DNA binding site [nucleotide binding]; other site 1005058003012 putative Zn2+ binding site [ion binding]; other site 1005058003013 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005058003014 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1005058003015 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005058003016 Virulence protein [General function prediction only]; Region: COG3943 1005058003017 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1005058003018 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1005058003019 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1005058003020 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 1005058003021 S-adenosylmethionine binding site [chemical binding]; other site 1005058003022 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1005058003023 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005058003024 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1005058003025 hypothetical protein; Provisional; Region: PRK11193 1005058003026 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1005058003027 putative phosphate acyltransferase; Provisional; Region: PRK05331 1005058003028 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1005058003029 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 1005058003030 dimer interface [polypeptide binding]; other site 1005058003031 active site 1005058003032 CoA binding pocket [chemical binding]; other site 1005058003033 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1005058003034 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1005058003035 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1005058003036 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1005058003037 NAD(P) binding site [chemical binding]; other site 1005058003038 homotetramer interface [polypeptide binding]; other site 1005058003039 homodimer interface [polypeptide binding]; other site 1005058003040 active site 1005058003041 acyl carrier protein; Provisional; Region: acpP; PRK00982 1005058003042 rarD protein; Region: rarD; TIGR00688 1005058003043 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1005058003044 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1005058003045 active site 1005058003046 substrate-binding site [chemical binding]; other site 1005058003047 metal-binding site [ion binding] 1005058003048 ATP binding site [chemical binding]; other site 1005058003049 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1005058003050 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1005058003051 DNA binding site [nucleotide binding] 1005058003052 catalytic residue [active] 1005058003053 H2TH interface [polypeptide binding]; other site 1005058003054 putative catalytic residues [active] 1005058003055 turnover-facilitating residue; other site 1005058003056 intercalation triad [nucleotide binding]; other site 1005058003057 8OG recognition residue [nucleotide binding]; other site 1005058003058 putative reading head residues; other site 1005058003059 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1005058003060 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1005058003061 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1005058003062 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1005058003063 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1005058003064 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1005058003065 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1005058003066 substrate binding pocket [chemical binding]; other site 1005058003067 chain length determination region; other site 1005058003068 substrate-Mg2+ binding site; other site 1005058003069 catalytic residues [active] 1005058003070 aspartate-rich region 1; other site 1005058003071 active site lid residues [active] 1005058003072 aspartate-rich region 2; other site 1005058003073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1005058003074 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1005058003075 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1005058003076 RmuC family; Region: RmuC; pfam02646 1005058003077 Maf-like protein; Region: Maf; pfam02545 1005058003078 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 1005058003079 active site 1005058003080 dimer interface [polypeptide binding]; other site 1005058003081 Putative catalytic domain of uncharacterized hypothetical proteins closely related to Nuc, , an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar2; cd09174 1005058003082 PLD-like domain; Region: PLDc_2; pfam13091 1005058003083 putative active site [active] 1005058003084 catalytic site [active] 1005058003085 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; cl02542 1005058003086 HSP70 interaction site [polypeptide binding]; other site 1005058003087 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1005058003088 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1005058003089 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1005058003090 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1005058003091 exoribonuclease R; Provisional; Region: PRK11642 1005058003092 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1005058003093 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1005058003094 RNB domain; Region: RNB; pfam00773 1005058003095 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 1005058003096 RNA binding site [nucleotide binding]; other site 1005058003097 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1005058003098 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1005058003099 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 1005058003100 trimer interface [polypeptide binding]; other site 1005058003101 active site 1005058003102 substrate binding site [chemical binding]; other site 1005058003103 CoA binding site [chemical binding]; other site 1005058003104 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1005058003105 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1005058003106 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1005058003107 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1005058003108 SecA binding site; other site 1005058003109 Preprotein binding site; other site 1005058003110 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 1005058003111 active site residue [active] 1005058003112 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 1005058003113 catalytic core [active] 1005058003114 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 1005058003115 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1005058003116 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005058003117 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1005058003118 NodB motif; other site 1005058003119 putative active site [active] 1005058003120 putative catalytic site [active] 1005058003121 Zn binding site [ion binding]; other site 1005058003122 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1005058003123 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005058003124 Surface antigen; Region: Bac_surface_Ag; pfam01103 1005058003125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1005058003126 Family of unknown function (DUF490); Region: DUF490; pfam04357 1005058003127 exopolyphosphatase; Provisional; Region: PRK10854 1005058003128 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1005058003129 Pirin-related protein [General function prediction only]; Region: COG1741 1005058003130 Pirin; Region: Pirin; pfam02678 1005058003131 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1005058003132 Predicted flavoprotein [General function prediction only]; Region: COG0431 1005058003133 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005058003134 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1005058003135 active site residue [active] 1005058003136 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 1005058003137 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1005058003138 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1005058003139 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1005058003140 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 1005058003141 C-terminal domain interface [polypeptide binding]; other site 1005058003142 putative GSH binding site (G-site) [chemical binding]; other site 1005058003143 dimer interface [polypeptide binding]; other site 1005058003144 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1005058003145 dimer interface [polypeptide binding]; other site 1005058003146 N-terminal domain interface [polypeptide binding]; other site 1005058003147 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1005058003148 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1005058003149 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 1005058003150 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 1005058003151 Walker A motif; other site 1005058003152 ATP binding site [chemical binding]; other site 1005058003153 Walker B motif; other site 1005058003154 arginine finger; other site 1005058003155 dUMP phosphatase; Provisional; Region: PRK09449 1005058003156 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 1005058003157 motif II; other site 1005058003158 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1005058003159 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 1005058003160 FMN binding site [chemical binding]; other site 1005058003161 active site 1005058003162 catalytic residues [active] 1005058003163 substrate binding site [chemical binding]; other site 1005058003164 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1005058003165 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1005058003166 putative metal binding site [ion binding]; other site 1005058003167 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 1005058003168 HSP70 interaction site [polypeptide binding]; other site 1005058003169 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1005058003170 recombinase A; Provisional; Region: recA; PRK09354 1005058003171 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 1005058003172 hexamer interface [polypeptide binding]; other site 1005058003173 Walker A motif; other site 1005058003174 ATP binding site [chemical binding]; other site 1005058003175 Walker B motif; other site 1005058003176 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1005058003177 MutS domain I; Region: MutS_I; pfam01624 1005058003178 MutS domain II; Region: MutS_II; pfam05188 1005058003179 MutS domain III; Region: MutS_III; pfam05192 1005058003180 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1005058003181 Walker A/P-loop; other site 1005058003182 ATP binding site [chemical binding]; other site 1005058003183 Q-loop/lid; other site 1005058003184 ABC transporter signature motif; other site 1005058003185 Walker B; other site 1005058003186 D-loop; other site 1005058003187 H-loop/switch region; other site 1005058003188 ornithine carbamoyltransferase; Validated; Region: PRK02102 1005058003189 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1005058003190 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1005058003191 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 1005058003192 homotrimer interaction site [polypeptide binding]; other site 1005058003193 putative active site [active] 1005058003194 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1005058003195 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1005058003196 dimer interface [polypeptide binding]; other site 1005058003197 active site 1005058003198 metal binding site [ion binding]; metal-binding site 1005058003199 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1005058003200 FIC domain binding interface [polypeptide binding]; other site 1005058003201 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1005058003202 Zeta toxin; Region: Zeta_toxin; pfam06414 1005058003203 AAA domain; Region: AAA_17; cl17253 1005058003204 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1005058003205 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005058003206 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1005058003207 NAD binding site [chemical binding]; other site 1005058003208 dimer interface [polypeptide binding]; other site 1005058003209 substrate binding site [chemical binding]; other site 1005058003210 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1005058003211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005058003212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058003213 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 1005058003214 dimerization interface [polypeptide binding]; other site 1005058003215 chaperone protein HchA; Provisional; Region: PRK04155 1005058003216 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1005058003217 conserved cys residue [active] 1005058003218 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1005058003219 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1005058003220 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1005058003221 DNA binding residues [nucleotide binding] 1005058003222 dimer interface [polypeptide binding]; other site 1005058003223 putative metal binding site [ion binding]; other site 1005058003224 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058003225 Walker A/P-loop; other site 1005058003226 ATP binding site [chemical binding]; other site 1005058003227 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 1005058003228 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1005058003229 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1005058003230 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1005058003231 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1005058003232 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1005058003233 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 1005058003234 dimer interface [polypeptide binding]; other site 1005058003235 ssDNA binding site [nucleotide binding]; other site 1005058003236 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005058003237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005058003238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058003239 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 1005058003240 putative effector binding pocket; other site 1005058003241 putative dimerization interface [polypeptide binding]; other site 1005058003242 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 1005058003243 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005058003244 active site 1005058003245 catalytic tetrad [active] 1005058003246 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1005058003247 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005058003248 catalytic site [active] 1005058003249 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1005058003250 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 1005058003251 substrate binding pocket [chemical binding]; other site 1005058003252 catalytic triad [active] 1005058003253 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 1005058003254 active site 1005058003255 NTP binding site [chemical binding]; other site 1005058003256 metal binding triad [ion binding]; metal-binding site 1005058003257 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus; Region: OAS1_C; pfam10421 1005058003258 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1005058003259 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1005058003260 ATP binding site [chemical binding]; other site 1005058003261 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 1005058003262 Virulence protein [General function prediction only]; Region: COG3943 1005058003263 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1005058003264 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1005058003265 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005058003266 HTH-like domain; Region: HTH_21; pfam13276 1005058003267 Integrase core domain; Region: rve; pfam00665 1005058003268 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058003269 Integrase core domain; Region: rve_3; pfam13683 1005058003270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058003271 Transposase; Region: HTH_Tnp_1; pfam01527 1005058003272 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1005058003273 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005058003274 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1005058003275 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005058003276 catalytic site [active] 1005058003277 potential frameshift: common BLAST hit: gi|325287265|ref|YP_004263055.1| helicase 1005058003278 AAA domain; Region: AAA_30; pfam13604 1005058003279 Family description; Region: UvrD_C_2; pfam13538 1005058003280 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 1005058003281 Walker A motif; other site 1005058003282 ATP binding site [chemical binding]; other site 1005058003283 Walker B motif; other site 1005058003284 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1005058003285 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1005058003286 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1005058003287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005058003288 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1005058003289 HTH-like domain; Region: HTH_21; pfam13276 1005058003290 Integrase core domain; Region: rve; pfam00665 1005058003291 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058003292 Integrase core domain; Region: rve_3; pfam13683 1005058003293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058003294 Transposase; Region: HTH_Tnp_1; pfam01527 1005058003295 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1005058003296 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 1005058003297 dimerization interface [polypeptide binding]; other site 1005058003298 ATP binding site [chemical binding]; other site 1005058003299 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 1005058003300 dimerization interface [polypeptide binding]; other site 1005058003301 ATP binding site [chemical binding]; other site 1005058003302 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1005058003303 putative active site [active] 1005058003304 catalytic triad [active] 1005058003305 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1005058003306 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 1005058003307 substrate binding pocket [chemical binding]; other site 1005058003308 membrane-bound complex binding site; other site 1005058003309 hinge residues; other site 1005058003310 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 1005058003311 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005058003312 catalytic residue [active] 1005058003313 ribonuclease PH; Reviewed; Region: rph; PRK00173 1005058003314 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1005058003315 hexamer interface [polypeptide binding]; other site 1005058003316 active site 1005058003317 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058003318 active site 1005058003319 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 1005058003320 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1005058003321 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 1005058003322 dimerization interface [polypeptide binding]; other site 1005058003323 domain crossover interface; other site 1005058003324 redox-dependent activation switch; other site 1005058003325 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 1005058003326 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1005058003327 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1005058003328 putative NTP binding site [chemical binding]; other site 1005058003329 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1005058003330 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1005058003331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058003332 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058003333 Probable transposase; Region: OrfB_IS605; pfam01385 1005058003334 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058003335 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1005058003336 Part of AAA domain; Region: AAA_19; pfam13245 1005058003337 Family description; Region: UvrD_C_2; pfam13538 1005058003338 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1005058003339 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005058003340 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 1005058003341 DNA binding residues [nucleotide binding] 1005058003342 PBP superfamily domain; Region: PBP_like_2; cl17296 1005058003343 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1005058003344 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 1005058003345 dimer interface [polypeptide binding]; other site 1005058003346 conserved gate region; other site 1005058003347 putative PBP binding loops; other site 1005058003348 ABC-ATPase subunit interface; other site 1005058003349 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1005058003350 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 1005058003351 dimer interface [polypeptide binding]; other site 1005058003352 conserved gate region; other site 1005058003353 putative PBP binding loops; other site 1005058003354 ABC-ATPase subunit interface; other site 1005058003355 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1005058003356 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1005058003357 Walker A/P-loop; other site 1005058003358 ATP binding site [chemical binding]; other site 1005058003359 Q-loop/lid; other site 1005058003360 ABC transporter signature motif; other site 1005058003361 Walker B; other site 1005058003362 D-loop; other site 1005058003363 H-loop/switch region; other site 1005058003364 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1005058003365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058003366 active site 1005058003367 phosphorylation site [posttranslational modification] 1005058003368 intermolecular recognition site; other site 1005058003369 dimerization interface [polypeptide binding]; other site 1005058003370 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 1005058003371 DNA binding site [nucleotide binding] 1005058003372 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1005058003373 PAS domain; Region: PAS; smart00091 1005058003374 putative active site [active] 1005058003375 heme pocket [chemical binding]; other site 1005058003376 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 1005058003377 dimer interface [polypeptide binding]; other site 1005058003378 phosphorylation site [posttranslational modification] 1005058003379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058003380 ATP binding site [chemical binding]; other site 1005058003381 Mg2+ binding site [ion binding]; other site 1005058003382 G-X-G motif; other site 1005058003383 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1005058003384 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1005058003385 active site 1005058003386 ATP-dependent helicase HepA; Validated; Region: PRK04914 1005058003387 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 1005058003388 ATP binding site [chemical binding]; other site 1005058003389 putative Mg++ binding site [ion binding]; other site 1005058003390 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 1005058003391 nucleotide binding region [chemical binding]; other site 1005058003392 ATP-binding site [chemical binding]; other site 1005058003393 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1005058003394 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1005058003395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005058003396 Coenzyme A binding pocket [chemical binding]; other site 1005058003397 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058003398 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058003399 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058003400 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1005058003401 Na2 binding site [ion binding]; other site 1005058003402 putative substrate binding site 1 [chemical binding]; other site 1005058003403 Na binding site 1 [ion binding]; other site 1005058003404 putative substrate binding site 2 [chemical binding]; other site 1005058003405 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1005058003406 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1005058003407 active site turn [active] 1005058003408 phosphorylation site [posttranslational modification] 1005058003409 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1005058003410 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005058003411 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1005058003412 putative substrate binding site [chemical binding]; other site 1005058003413 putative ATP binding site [chemical binding]; other site 1005058003414 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1005058003415 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1005058003416 substrate binding [chemical binding]; other site 1005058003417 active site 1005058003418 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1005058003419 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058003420 DNA binding site [nucleotide binding] 1005058003421 domain linker motif; other site 1005058003422 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1005058003423 dimerization interface [polypeptide binding]; other site 1005058003424 ligand binding site [chemical binding]; other site 1005058003425 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 1005058003426 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1005058003427 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005058003428 EamA-like transporter family; Region: EamA; pfam00892 1005058003429 Protein of unknown function (DUF539); Region: DUF539; cl01129 1005058003430 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1005058003431 ApbE family; Region: ApbE; pfam02424 1005058003432 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1005058003433 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 1005058003434 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1005058003435 FAD binding pocket [chemical binding]; other site 1005058003436 FAD binding motif [chemical binding]; other site 1005058003437 phosphate binding motif [ion binding]; other site 1005058003438 beta-alpha-beta structure motif; other site 1005058003439 NAD binding pocket [chemical binding]; other site 1005058003440 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1005058003441 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1005058003442 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1005058003443 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1005058003444 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1005058003445 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1005058003446 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 1005058003447 E3 interaction surface; other site 1005058003448 lipoyl attachment site [posttranslational modification]; other site 1005058003449 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1005058003450 BolA-like protein; Region: BolA; cl00386 1005058003451 hypothetical protein; Provisional; Region: PRK11627 1005058003452 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1005058003453 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1005058003454 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1005058003455 active site 1005058003456 intersubunit interface [polypeptide binding]; other site 1005058003457 catalytic residue [active] 1005058003458 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005058003459 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 1005058003460 N-terminal plug; other site 1005058003461 ligand-binding site [chemical binding]; other site 1005058003462 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1005058003463 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1005058003464 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1005058003465 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 1005058003466 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005058003467 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 1005058003468 putative active site [active] 1005058003469 D-allose transporter subunit; Provisional; Region: PRK09701 1005058003470 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005058003471 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 1005058003472 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005058003473 Walker A/P-loop; other site 1005058003474 ATP binding site [chemical binding]; other site 1005058003475 Q-loop/lid; other site 1005058003476 ABC transporter signature motif; other site 1005058003477 Walker B; other site 1005058003478 D-loop; other site 1005058003479 H-loop/switch region; other site 1005058003480 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005058003481 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005058003482 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 1005058003483 TM-ABC transporter signature motif; other site 1005058003484 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1005058003485 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 1005058003486 substrate binding site [chemical binding]; other site 1005058003487 hexamer interface [polypeptide binding]; other site 1005058003488 metal binding site [ion binding]; metal-binding site 1005058003489 D-allose kinase; Provisional; Region: PRK09698 1005058003490 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1005058003491 nucleotide binding site [chemical binding]; other site 1005058003492 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1005058003493 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1005058003494 dimer interface [polypeptide binding]; other site 1005058003495 active site 1005058003496 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1005058003497 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1005058003498 Phosphoglycerate kinase; Region: PGK; pfam00162 1005058003499 substrate binding site [chemical binding]; other site 1005058003500 hinge regions; other site 1005058003501 ADP binding site [chemical binding]; other site 1005058003502 catalytic site [active] 1005058003503 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1005058003504 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1005058003505 active site 1005058003506 intersubunit interface [polypeptide binding]; other site 1005058003507 zinc binding site [ion binding]; other site 1005058003508 Na+ binding site [ion binding]; other site 1005058003509 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 1005058003510 sugar efflux transporter B; Provisional; Region: PRK15011 1005058003511 putative substrate translocation pore; other site 1005058003512 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1005058003513 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 1005058003514 hinge; other site 1005058003515 active site 1005058003516 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1005058003517 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1005058003518 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1005058003519 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1005058003520 alphaNTD homodimer interface [polypeptide binding]; other site 1005058003521 alphaNTD - beta interaction site [polypeptide binding]; other site 1005058003522 alphaNTD - beta' interaction site [polypeptide binding]; other site 1005058003523 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1005058003524 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1005058003525 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1005058003526 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 1005058003527 RNA binding surface [nucleotide binding]; other site 1005058003528 30S ribosomal protein S11; Validated; Region: PRK05309 1005058003529 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1005058003530 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1005058003531 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1005058003532 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1005058003533 SecY translocase; Region: SecY; pfam00344 1005058003534 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1005058003535 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 1005058003536 23S rRNA binding site [nucleotide binding]; other site 1005058003537 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1005058003538 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1005058003539 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1005058003540 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 1005058003541 5S rRNA interface [nucleotide binding]; other site 1005058003542 23S rRNA interface [nucleotide binding]; other site 1005058003543 L5 interface [polypeptide binding]; other site 1005058003544 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1005058003545 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1005058003546 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1005058003547 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1005058003548 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1005058003549 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1005058003550 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1005058003551 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1005058003552 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1005058003553 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1005058003554 RNA binding site [nucleotide binding]; other site 1005058003555 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1005058003556 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1005058003557 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 1005058003558 23S rRNA interface [nucleotide binding]; other site 1005058003559 putative translocon interaction site; other site 1005058003560 signal recognition particle (SRP54) interaction site; other site 1005058003561 L23 interface [polypeptide binding]; other site 1005058003562 trigger factor interaction site; other site 1005058003563 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 1005058003564 23S rRNA interface [nucleotide binding]; other site 1005058003565 5S rRNA interface [nucleotide binding]; other site 1005058003566 putative antibiotic binding site [chemical binding]; other site 1005058003567 L25 interface [polypeptide binding]; other site 1005058003568 L27 interface [polypeptide binding]; other site 1005058003569 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1005058003570 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 1005058003571 G-X-X-G motif; other site 1005058003572 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1005058003573 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 1005058003574 protein-rRNA interface [nucleotide binding]; other site 1005058003575 putative translocon binding site; other site 1005058003576 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1005058003577 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1005058003578 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1005058003579 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1005058003580 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1005058003581 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1005058003582 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1005058003583 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1005058003584 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1005058003585 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1005058003586 succinic semialdehyde dehydrogenase; Region: PLN02278 1005058003587 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1005058003588 tetramerization interface [polypeptide binding]; other site 1005058003589 NAD(P) binding site [chemical binding]; other site 1005058003590 catalytic residues [active] 1005058003591 Aminoglycoside 3'-phosphotransferase (APH). The APH 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), RIO kinases, actin-fragmin...; Region: APH; cd05150 1005058003592 active site 1005058003593 ATP binding site [chemical binding]; other site 1005058003594 Phosphotransferase enzyme family; Region: APH; pfam01636 1005058003595 antibiotic binding site [chemical binding]; other site 1005058003596 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1005058003597 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 1005058003598 inhibitor-cofactor binding pocket; inhibition site 1005058003599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058003600 catalytic residue [active] 1005058003601 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1005058003602 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1005058003603 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005058003604 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1005058003605 GTPase Era; Reviewed; Region: era; PRK00089 1005058003606 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1005058003607 G1 box; other site 1005058003608 GTP/Mg2+ binding site [chemical binding]; other site 1005058003609 Switch I region; other site 1005058003610 G2 box; other site 1005058003611 Switch II region; other site 1005058003612 G3 box; other site 1005058003613 G4 box; other site 1005058003614 G5 box; other site 1005058003615 KH domain; Region: KH_2; pfam07650 1005058003616 ribonuclease III; Reviewed; Region: rnc; PRK00102 1005058003617 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 1005058003618 dimerization interface [polypeptide binding]; other site 1005058003619 active site 1005058003620 metal binding site [ion binding]; metal-binding site 1005058003621 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 1005058003622 dsRNA binding site [nucleotide binding]; other site 1005058003623 signal peptidase I; Provisional; Region: PRK10861 1005058003624 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 1005058003625 Catalytic site [active] 1005058003626 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 1005058003627 GTP-binding protein LepA; Provisional; Region: PRK05433 1005058003628 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1005058003629 G1 box; other site 1005058003630 putative GEF interaction site [polypeptide binding]; other site 1005058003631 GTP/Mg2+ binding site [chemical binding]; other site 1005058003632 Switch I region; other site 1005058003633 G2 box; other site 1005058003634 G3 box; other site 1005058003635 Switch II region; other site 1005058003636 G4 box; other site 1005058003637 G5 box; other site 1005058003638 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1005058003639 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 1005058003640 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1005058003641 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058003642 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058003643 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058003644 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1005058003645 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1005058003646 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1005058003647 DNA utilization protein GntX; Provisional; Region: PRK11595 1005058003648 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058003649 active site 1005058003650 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1005058003651 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 1005058003652 motif II; other site 1005058003653 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 1005058003654 motif II; other site 1005058003655 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1005058003656 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 1005058003657 PYR/PP interface [polypeptide binding]; other site 1005058003658 dimer interface [polypeptide binding]; other site 1005058003659 TPP binding site [chemical binding]; other site 1005058003660 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1005058003661 transketolase; Reviewed; Region: PRK05899 1005058003662 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 1005058003663 TPP-binding site [chemical binding]; other site 1005058003664 dimer interface [polypeptide binding]; other site 1005058003665 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1005058003666 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1005058003667 active site 1005058003668 P-loop; other site 1005058003669 phosphorylation site [posttranslational modification] 1005058003670 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 1005058003671 active site 1005058003672 phosphorylation site [posttranslational modification] 1005058003673 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005058003674 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058003675 DNA binding site [nucleotide binding] 1005058003676 domain linker motif; other site 1005058003677 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005058003678 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1005058003679 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1005058003680 NADP binding site [chemical binding]; other site 1005058003681 dimer interface [polypeptide binding]; other site 1005058003682 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1005058003683 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 1005058003684 S-adenosylmethionine binding site [chemical binding]; other site 1005058003685 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1005058003686 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1005058003687 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1005058003688 P loop; other site 1005058003689 GTP binding site [chemical binding]; other site 1005058003690 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1005058003691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058003692 Walker A/P-loop; other site 1005058003693 ATP binding site [chemical binding]; other site 1005058003694 Q-loop/lid; other site 1005058003695 ABC transporter signature motif; other site 1005058003696 Walker B; other site 1005058003697 D-loop; other site 1005058003698 H-loop/switch region; other site 1005058003699 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1005058003700 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1005058003701 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1005058003702 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1005058003703 Cl binding site [ion binding]; other site 1005058003704 oligomer interface [polypeptide binding]; other site 1005058003705 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1005058003706 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1005058003707 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1005058003708 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1005058003709 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1005058003710 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 1005058003711 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1005058003712 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1005058003713 putative [Fe4-S4] binding site [ion binding]; other site 1005058003714 putative molybdopterin cofactor binding site [chemical binding]; other site 1005058003715 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1005058003716 putative molybdopterin cofactor binding site; other site 1005058003717 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1005058003718 active site 1005058003719 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1005058003720 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1005058003721 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1005058003722 gamma subunit interface [polypeptide binding]; other site 1005058003723 epsilon subunit interface [polypeptide binding]; other site 1005058003724 LBP interface [polypeptide binding]; other site 1005058003725 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1005058003726 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1005058003727 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 1005058003728 alpha subunit interaction interface [polypeptide binding]; other site 1005058003729 Walker A motif; other site 1005058003730 ATP binding site [chemical binding]; other site 1005058003731 Walker B motif; other site 1005058003732 inhibitor binding site; inhibition site 1005058003733 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1005058003734 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1005058003735 core domain interface [polypeptide binding]; other site 1005058003736 delta subunit interface [polypeptide binding]; other site 1005058003737 epsilon subunit interface [polypeptide binding]; other site 1005058003738 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1005058003739 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1005058003740 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 1005058003741 beta subunit interaction interface [polypeptide binding]; other site 1005058003742 Walker A motif; other site 1005058003743 ATP binding site [chemical binding]; other site 1005058003744 Walker B motif; other site 1005058003745 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1005058003746 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1005058003747 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1005058003748 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1005058003749 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1005058003750 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1005058003751 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1005058003752 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1005058003753 ATP synthase I chain; Region: ATP_synt_I; cl09170 1005058003754 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1005058003755 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1005058003756 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1005058003757 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1005058003758 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1005058003759 Divergent AAA domain; Region: AAA_4; pfam04326 1005058003760 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1005058003761 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1005058003762 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1005058003763 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005058003764 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1005058003765 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 1005058003766 ATP binding site [chemical binding]; other site 1005058003767 putative Mg++ binding site [ion binding]; other site 1005058003768 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 1005058003769 nucleotide binding region [chemical binding]; other site 1005058003770 ATP-binding site [chemical binding]; other site 1005058003771 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1005058003772 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1005058003773 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1005058003774 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1005058003775 FMN-binding protein MioC; Provisional; Region: PRK09004 1005058003776 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005058003777 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1005058003778 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005058003779 Predicted membrane protein [Function unknown]; Region: COG1238 1005058003780 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1005058003781 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 1005058003782 S-adenosylmethionine binding site [chemical binding]; other site 1005058003783 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1005058003784 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 1005058003785 homotrimer interaction site [polypeptide binding]; other site 1005058003786 zinc binding site [ion binding]; other site 1005058003787 CDP-binding sites; other site 1005058003788 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1005058003789 substrate binding site; other site 1005058003790 dimer interface; other site 1005058003791 Septum formation initiator; Region: DivIC; cl17659 1005058003792 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1005058003793 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1005058003794 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1005058003795 putative active site [active] 1005058003796 substrate binding site [chemical binding]; other site 1005058003797 putative cosubstrate binding site; other site 1005058003798 catalytic site [active] 1005058003799 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1005058003800 substrate binding site [chemical binding]; other site 1005058003801 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1005058003802 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1005058003803 putative RNA binding site [nucleotide binding]; other site 1005058003804 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 1005058003805 S-adenosylmethionine binding site [chemical binding]; other site 1005058003806 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1005058003807 TrkA-N domain; Region: TrkA_N; pfam02254 1005058003808 TrkA-C domain; Region: TrkA_C; pfam02080 1005058003809 TrkA-N domain; Region: TrkA_N; pfam02254 1005058003810 TrkA-C domain; Region: TrkA_C; pfam02080 1005058003811 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1005058003812 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1005058003813 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1005058003814 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1005058003815 hypothetical protein; Provisional; Region: PRK05208 1005058003816 selenocysteine synthase; Provisional; Region: PRK04311 1005058003817 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1005058003818 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1005058003819 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005058003820 catalytic residue [active] 1005058003821 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1005058003822 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1005058003823 G1 box; other site 1005058003824 putative GEF interaction site [polypeptide binding]; other site 1005058003825 GTP/Mg2+ binding site [chemical binding]; other site 1005058003826 Switch I region; other site 1005058003827 G2 box; other site 1005058003828 G3 box; other site 1005058003829 Switch II region; other site 1005058003830 G4 box; other site 1005058003831 G5 box; other site 1005058003832 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1005058003833 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1005058003834 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1005058003835 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1005058003836 Outer membrane efflux protein; Region: OEP; pfam02321 1005058003837 Outer membrane efflux protein; Region: OEP; pfam02321 1005058003838 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1005058003839 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1005058003840 putative active site [active] 1005058003841 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005058003842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058003843 Walker A/P-loop; other site 1005058003844 ATP binding site [chemical binding]; other site 1005058003845 Q-loop/lid; other site 1005058003846 ABC transporter signature motif; other site 1005058003847 Walker B; other site 1005058003848 D-loop; other site 1005058003849 H-loop/switch region; other site 1005058003850 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1005058003851 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005058003852 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005058003853 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1005058003854 DNA protecting protein DprA; Region: dprA; TIGR00732 1005058003855 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 1005058003856 active site 1005058003857 catalytic residues [active] 1005058003858 metal binding site [ion binding]; metal-binding site 1005058003859 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1005058003860 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1005058003861 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005058003862 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1005058003863 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1005058003864 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1005058003865 trimer interface [polypeptide binding]; other site 1005058003866 substrate binding site [chemical binding]; other site 1005058003867 Mn binding site [ion binding]; other site 1005058003868 L-fuculokinase; Provisional; Region: PRK10331 1005058003869 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1005058003870 nucleotide binding site [chemical binding]; other site 1005058003871 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1005058003872 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1005058003873 intersubunit interface [polypeptide binding]; other site 1005058003874 active site 1005058003875 Zn2+ binding site [ion binding]; other site 1005058003876 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1005058003877 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 1005058003878 putative substrate translocation pore; other site 1005058003879 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1005058003880 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1005058003881 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 1005058003882 dimerization interface [polypeptide binding]; other site 1005058003883 Histidine kinase; Region: HisKA_3; pfam07730 1005058003884 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058003885 ATP binding site [chemical binding]; other site 1005058003886 Mg2+ binding site [ion binding]; other site 1005058003887 G-X-G motif; other site 1005058003888 ferredoxin-type protein NapF; Region: napF; TIGR00402 1005058003889 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1005058003890 NapD protein; Region: NapD; pfam03927 1005058003891 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1005058003892 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 1005058003893 [4Fe-4S] binding site [ion binding]; other site 1005058003894 molybdopterin cofactor binding site; other site 1005058003895 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 1005058003896 molybdopterin cofactor binding site; other site 1005058003897 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1005058003898 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1005058003899 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1005058003900 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1005058003901 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 1005058003902 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1005058003903 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1005058003904 argininosuccinate lyase; Provisional; Region: PRK04833 1005058003905 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1005058003906 active sites [active] 1005058003907 tetramer interface [polypeptide binding]; other site 1005058003908 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1005058003909 nucleotide binding site [chemical binding]; other site 1005058003910 substrate binding site [chemical binding]; other site 1005058003911 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1005058003912 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1005058003913 acetylornithine deacetylase; Provisional; Region: PRK05111 1005058003914 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1005058003915 metal binding site [ion binding]; metal-binding site 1005058003916 putative dimer interface [polypeptide binding]; other site 1005058003917 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1005058003918 Lysine efflux permease [General function prediction only]; Region: COG1279 1005058003919 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 1005058003920 dimer interface [polypeptide binding]; other site 1005058003921 substrate binding site [chemical binding]; other site 1005058003922 metal binding sites [ion binding]; metal-binding site 1005058003923 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1005058003924 Cupin; Region: Cupin_6; pfam12852 1005058003925 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005058003926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005058003927 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1005058003928 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005058003929 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1005058003930 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1005058003931 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1005058003932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058003933 active site 1005058003934 phosphorylation site [posttranslational modification] 1005058003935 intermolecular recognition site; other site 1005058003936 dimerization interface [polypeptide binding]; other site 1005058003937 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 1005058003938 DNA binding residues [nucleotide binding] 1005058003939 dimerization interface [polypeptide binding]; other site 1005058003940 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1005058003941 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 1005058003942 dimer interface [polypeptide binding]; other site 1005058003943 phosphorylation site [posttranslational modification] 1005058003944 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058003945 ATP binding site [chemical binding]; other site 1005058003946 Mg2+ binding site [ion binding]; other site 1005058003947 G-X-G motif; other site 1005058003948 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1005058003949 4Fe-4S binding domain; Region: Fer4; pfam00037 1005058003950 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1005058003951 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1005058003952 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1005058003953 putative [Fe4-S4] binding site [ion binding]; other site 1005058003954 putative molybdopterin cofactor binding site [chemical binding]; other site 1005058003955 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1005058003956 putative molybdopterin cofactor binding site; other site 1005058003957 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1005058003958 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005058003959 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 1005058003960 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1005058003961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058003962 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058003963 Probable transposase; Region: OrfB_IS605; pfam01385 1005058003964 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058003965 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1005058003966 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005058003967 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1005058003968 active site 1005058003969 metal binding site [ion binding]; metal-binding site 1005058003970 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 1005058003971 non-specific DNA binding site [nucleotide binding]; other site 1005058003972 salt bridge; other site 1005058003973 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1005058003974 sequence-specific DNA binding site [nucleotide binding]; other site 1005058003975 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005058003976 active site 1005058003977 nucleotide binding site [chemical binding]; other site 1005058003978 HIGH motif; other site 1005058003979 KMSKS motif; other site 1005058003980 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1005058003981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1005058003982 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 1005058003983 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1005058003984 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1005058003985 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 1005058003986 putative substrate translocation pore; other site 1005058003987 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1005058003988 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005058003989 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 1005058003990 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 1005058003991 dimer interface [polypeptide binding]; other site 1005058003992 phosphorylation site [posttranslational modification] 1005058003993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058003994 ATP binding site [chemical binding]; other site 1005058003995 Mg2+ binding site [ion binding]; other site 1005058003996 G-X-G motif; other site 1005058003997 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1005058003998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058003999 active site 1005058004000 phosphorylation site [posttranslational modification] 1005058004001 intermolecular recognition site; other site 1005058004002 dimerization interface [polypeptide binding]; other site 1005058004003 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 1005058004004 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005058004005 adenylosuccinate lyase; Provisional; Region: PRK09285 1005058004006 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1005058004007 tetramer interface [polypeptide binding]; other site 1005058004008 active site 1005058004009 putative lysogenization regulator; Reviewed; Region: PRK00218 1005058004010 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1005058004011 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1005058004012 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 1005058004013 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005058004014 catalytic residue [active] 1005058004015 oxidative damage protection protein; Provisional; Region: PRK05408 1005058004016 adenine DNA glycosylase; Provisional; Region: PRK10880 1005058004017 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005058004018 minor groove reading motif; other site 1005058004019 helix-hairpin-helix signature motif; other site 1005058004020 substrate binding pocket [chemical binding]; other site 1005058004021 active site 1005058004022 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1005058004023 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 1005058004024 DNA binding and oxoG recognition site [nucleotide binding] 1005058004025 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1005058004026 hypothetical protein; Provisional; Region: PRK11702 1005058004027 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1005058004028 G1 box; other site 1005058004029 GTP/Mg2+ binding site [chemical binding]; other site 1005058004030 Switch I region; other site 1005058004031 G2 box; other site 1005058004032 G3 box; other site 1005058004033 Switch II region; other site 1005058004034 G4 box; other site 1005058004035 G5 box; other site 1005058004036 Predicted membrane protein [Function unknown]; Region: COG3152 1005058004037 enolase; Provisional; Region: eno; PRK00077 1005058004038 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 1005058004039 dimer interface [polypeptide binding]; other site 1005058004040 metal binding site [ion binding]; metal-binding site 1005058004041 substrate binding pocket [chemical binding]; other site 1005058004042 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 1005058004043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1005058004044 dimer interface [polypeptide binding]; other site 1005058004045 active site 1005058004046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005058004047 catalytic residues [active] 1005058004048 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1005058004049 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1005058004050 agmatinase; Region: agmatinase; TIGR01230 1005058004051 oligomer interface [polypeptide binding]; other site 1005058004052 putative active site [active] 1005058004053 Mn binding site [ion binding]; other site 1005058004054 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 1005058004055 active site 1005058004056 dimerization interface [polypeptide binding]; other site 1005058004057 HemN family oxidoreductase; Provisional; Region: PRK05660 1005058004058 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 1005058004059 FeS/SAM binding site; other site 1005058004060 HemN C-terminal domain; Region: HemN_C; pfam06969 1005058004061 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 1005058004062 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005058004063 active site 1005058004064 dimer interface [polypeptide binding]; other site 1005058004065 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1005058004066 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1005058004067 ligand binding site [chemical binding]; other site 1005058004068 NAD binding site [chemical binding]; other site 1005058004069 tetramer interface [polypeptide binding]; other site 1005058004070 catalytic site [active] 1005058004071 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1005058004072 L-serine binding site [chemical binding]; other site 1005058004073 ACT domain interface; other site 1005058004074 DNA methylase; Region: N6_N4_Mtase; cl17433 1005058004075 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 1005058004076 FMN binding site [chemical binding]; other site 1005058004077 substrate binding site [chemical binding]; other site 1005058004078 putative catalytic residue [active] 1005058004079 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1005058004080 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1005058004081 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1005058004082 DNA binding residues [nucleotide binding] 1005058004083 dimer interface [polypeptide binding]; other site 1005058004084 putative metal binding site [ion binding]; other site 1005058004085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1005058004086 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1005058004087 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1005058004088 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1005058004089 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1005058004090 putative transposase OrfB; Reviewed; Region: PHA02517 1005058004091 HTH-like domain; Region: HTH_21; pfam13276 1005058004092 Integrase core domain; Region: rve; pfam00665 1005058004093 Integrase core domain; Region: rve_2; pfam13333 1005058004094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058004095 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058004096 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058004097 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1005058004098 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058004099 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058004100 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058004101 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1005058004102 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1005058004103 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 1005058004104 motif II; other site 1005058004105 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1005058004106 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1005058004107 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1005058004108 DNA binding residues [nucleotide binding] 1005058004109 dimer interface [polypeptide binding]; other site 1005058004110 copper binding site [ion binding]; other site 1005058004111 Sodium Bile acid symporter family; Region: SBF; cl17470 1005058004112 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1005058004113 putative transposase OrfB; Reviewed; Region: PHA02517 1005058004114 HTH-like domain; Region: HTH_21; pfam13276 1005058004115 Integrase core domain; Region: rve; pfam00665 1005058004116 Integrase core domain; Region: rve_2; pfam13333 1005058004117 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1005058004118 DNA methylase; Region: N6_N4_Mtase; pfam01555 1005058004119 DNA methylase; Region: N6_N4_Mtase; pfam01555 1005058004120 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1005058004121 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 1005058004122 ATP binding site [chemical binding]; other site 1005058004123 putative Mg++ binding site [ion binding]; other site 1005058004124 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1005058004125 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1005058004126 HIGH motif; other site 1005058004127 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1005058004128 active site 1005058004129 KMSKS motif; other site 1005058004130 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1005058004131 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1005058004132 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1005058004133 putative active site [active] 1005058004134 elongation factor Tu; Reviewed; Region: PRK00049 1005058004135 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1005058004136 G1 box; other site 1005058004137 GEF interaction site [polypeptide binding]; other site 1005058004138 GTP/Mg2+ binding site [chemical binding]; other site 1005058004139 Switch I region; other site 1005058004140 G2 box; other site 1005058004141 G3 box; other site 1005058004142 Switch II region; other site 1005058004143 G4 box; other site 1005058004144 G5 box; other site 1005058004145 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 1005058004146 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 1005058004147 Antibiotic Binding Site [chemical binding]; other site 1005058004148 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1005058004149 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1005058004150 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1005058004151 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1005058004152 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1005058004153 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1005058004154 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1005058004155 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005058004156 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1005058004157 UbiA prenyltransferase family; Region: UbiA; pfam01040 1005058004158 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1005058004159 CPxP motif; other site 1005058004160 proline dipeptidase; Provisional; Region: PRK13607 1005058004161 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1005058004162 active site 1005058004163 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1005058004164 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1005058004165 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1005058004166 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1005058004167 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1005058004168 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1005058004169 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1005058004170 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1005058004171 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1005058004172 active site 1005058004173 Riboflavin kinase; Region: Flavokinase; pfam01687 1005058004174 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1005058004175 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005058004176 active site 1005058004177 HIGH motif; other site 1005058004178 nucleotide binding site [chemical binding]; other site 1005058004179 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1005058004180 active site 1005058004181 KMSKS motif; other site 1005058004182 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1005058004183 tRNA binding surface [nucleotide binding]; other site 1005058004184 anticodon binding site; other site 1005058004185 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1005058004186 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1005058004187 lipoprotein signal peptidase; Provisional; Region: PRK14787 1005058004188 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1005058004189 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1005058004190 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1005058004191 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1005058004192 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1005058004193 active site turn [active] 1005058004194 phosphorylation site [posttranslational modification] 1005058004195 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1005058004196 FAD binding domain; Region: FAD_binding_4; pfam01565 1005058004197 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1005058004198 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1005058004199 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1005058004200 HD domain; Region: HD_4; pfam13328 1005058004201 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1005058004202 synthetase active site [active] 1005058004203 NTP binding site [chemical binding]; other site 1005058004204 metal binding site [ion binding]; metal-binding site 1005058004205 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 1005058004206 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1005058004207 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1005058004208 TRAM domain; Region: TRAM; pfam01938 1005058004209 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 1005058004210 S-adenosylmethionine binding site [chemical binding]; other site 1005058004211 DNA repair protein RecO; Region: reco; TIGR00613 1005058004212 Recombination protein O N terminal; Region: RecO_N; pfam11967 1005058004213 Recombination protein O C terminal; Region: RecO_C; pfam02565 1005058004214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058004215 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058004216 Probable transposase; Region: OrfB_IS605; pfam01385 1005058004217 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058004218 Mg chelatase-related protein; Region: TIGR00368 1005058004219 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1005058004220 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 1005058004221 Walker A motif; other site 1005058004222 ATP binding site [chemical binding]; other site 1005058004223 Walker B motif; other site 1005058004224 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1005058004225 lipoyl synthase; Provisional; Region: PRK05481 1005058004226 lipoate-protein ligase B; Provisional; Region: PRK14342 1005058004227 hypothetical protein; Provisional; Region: PRK04998 1005058004228 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1005058004229 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1005058004230 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1005058004231 rare lipoprotein A; Region: rlpA; TIGR00413 1005058004232 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1005058004233 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1005058004234 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1005058004235 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1005058004236 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1005058004237 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1005058004238 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1005058004239 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1005058004240 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 1005058004241 ATP binding site [chemical binding]; other site 1005058004242 Mg++ binding site [ion binding]; other site 1005058004243 motif III; other site 1005058004244 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 1005058004245 nucleotide binding region [chemical binding]; other site 1005058004246 ATP-binding site [chemical binding]; other site 1005058004247 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1005058004248 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1005058004249 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 1005058004250 RNA binding site [nucleotide binding]; other site 1005058004251 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 1005058004252 multimer interface [polypeptide binding]; other site 1005058004253 Walker A motif; other site 1005058004254 ATP binding site [chemical binding]; other site 1005058004255 Walker B motif; other site 1005058004256 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 1005058004257 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1005058004258 FAD binding pocket [chemical binding]; other site 1005058004259 FAD binding motif [chemical binding]; other site 1005058004260 phosphate binding motif [ion binding]; other site 1005058004261 beta-alpha-beta structure motif; other site 1005058004262 NAD binding pocket [chemical binding]; other site 1005058004263 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 1005058004264 catalytic loop [active] 1005058004265 iron binding site [ion binding]; other site 1005058004266 hybrid cluster protein; Provisional; Region: PRK05290 1005058004267 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 1005058004268 ACS interaction site; other site 1005058004269 CODH interaction site; other site 1005058004270 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1005058004271 hybrid metal cluster; other site 1005058004272 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1005058004273 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1005058004274 putative catalytic cysteine [active] 1005058004275 gamma-glutamyl kinase; Provisional; Region: PRK05429 1005058004276 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 1005058004277 nucleotide binding site [chemical binding]; other site 1005058004278 homotetrameric interface [polypeptide binding]; other site 1005058004279 putative phosphate binding site [ion binding]; other site 1005058004280 putative allosteric binding site; other site 1005058004281 PUA domain; Region: PUA; pfam01472 1005058004282 putative arabinose transporter; Provisional; Region: PRK03545 1005058004283 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 1005058004284 putative substrate translocation pore; other site 1005058004285 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1005058004286 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1005058004287 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1005058004288 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1005058004289 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1005058004290 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1005058004291 putative homodimer interface [polypeptide binding]; other site 1005058004292 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1005058004293 heterodimer interface [polypeptide binding]; other site 1005058004294 homodimer interface [polypeptide binding]; other site 1005058004295 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1005058004296 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 1005058004297 23S rRNA interface [nucleotide binding]; other site 1005058004298 L7/L12 interface [polypeptide binding]; other site 1005058004299 putative thiostrepton binding site; other site 1005058004300 L25 interface [polypeptide binding]; other site 1005058004301 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 1005058004302 mRNA/rRNA interface [nucleotide binding]; other site 1005058004303 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 1005058004304 23S rRNA interface [nucleotide binding]; other site 1005058004305 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1005058004306 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 1005058004307 core dimer interface [polypeptide binding]; other site 1005058004308 peripheral dimer interface [polypeptide binding]; other site 1005058004309 L10 interface [polypeptide binding]; other site 1005058004310 L11 interface [polypeptide binding]; other site 1005058004311 putative EF-Tu interaction site [polypeptide binding]; other site 1005058004312 putative EF-G interaction site [polypeptide binding]; other site 1005058004313 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1005058004314 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 1005058004315 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1005058004316 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 1005058004317 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1005058004318 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 1005058004319 RPB1 interaction site [polypeptide binding]; other site 1005058004320 RPB11 interaction site [polypeptide binding]; other site 1005058004321 RPB10 interaction site [polypeptide binding]; other site 1005058004322 RPB3 interaction site [polypeptide binding]; other site 1005058004323 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1005058004324 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1005058004325 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1005058004326 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1005058004327 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1005058004328 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1005058004329 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1005058004330 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1005058004331 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1005058004332 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1005058004333 DNA binding site [nucleotide binding] 1005058004334 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1005058004335 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1005058004336 putative metal binding site [ion binding]; other site 1005058004337 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1005058004338 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1005058004339 putative active site [active] 1005058004340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 1005058004341 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 1005058004342 active site 1005058004343 oxyanion hole [active] 1005058004344 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 1005058004345 catalytic triad [active] 1005058004346 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1005058004347 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 1005058004348 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 1005058004349 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005058004350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058004351 Transposase; Region: HTH_Tnp_1; pfam01527 1005058004352 HTH-like domain; Region: HTH_21; pfam13276 1005058004353 Integrase core domain; Region: rve; pfam00665 1005058004354 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058004355 Integrase core domain; Region: rve_3; pfam13683 1005058004356 CTP synthetase; Validated; Region: pyrG; PRK05380 1005058004357 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 1005058004358 Catalytic site [active] 1005058004359 active site 1005058004360 UTP binding site [chemical binding]; other site 1005058004361 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1005058004362 active site 1005058004363 putative oxyanion hole; other site 1005058004364 catalytic triad [active] 1005058004365 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1005058004366 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1005058004367 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1005058004368 Walker A/P-loop; other site 1005058004369 ATP binding site [chemical binding]; other site 1005058004370 Q-loop/lid; other site 1005058004371 ABC transporter signature motif; other site 1005058004372 Walker B; other site 1005058004373 D-loop; other site 1005058004374 H-loop/switch region; other site 1005058004375 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1005058004376 pantothenate kinase; Provisional; Region: PRK05439 1005058004377 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1005058004378 ATP-binding site [chemical binding]; other site 1005058004379 CoA-binding site [chemical binding]; other site 1005058004380 Mg2+-binding site [ion binding]; other site 1005058004381 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1005058004382 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1005058004383 transmembrane helices; other site 1005058004384 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 1005058004385 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1005058004386 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1005058004387 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1005058004388 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 1005058004389 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 1005058004390 Cysteine-rich domain; Region: CCG; pfam02754 1005058004391 Cysteine-rich domain; Region: CCG; pfam02754 1005058004392 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1005058004393 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 1005058004394 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1005058004395 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1005058004396 Prephenate dehydratase; Region: PDT; pfam00800 1005058004397 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 1005058004398 putative L-Phe binding site [chemical binding]; other site 1005058004399 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1005058004400 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 1005058004401 folate binding site [chemical binding]; other site 1005058004402 NADP+ binding site [chemical binding]; other site 1005058004403 chromosome condensation membrane protein; Provisional; Region: PRK14196 1005058004404 putative hydrolase; Provisional; Region: PRK10976 1005058004405 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 1005058004406 active site 1005058004407 motif I; other site 1005058004408 motif II; other site 1005058004409 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1005058004410 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005058004411 PYR/PP interface [polypeptide binding]; other site 1005058004412 dimer interface [polypeptide binding]; other site 1005058004413 TPP binding site [chemical binding]; other site 1005058004414 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005058004415 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 1005058004416 TPP-binding site [chemical binding]; other site 1005058004417 dimer interface [polypeptide binding]; other site 1005058004418 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1005058004419 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1005058004420 threonine dehydratase; Reviewed; Region: PRK09224 1005058004421 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 1005058004422 tetramer interface [polypeptide binding]; other site 1005058004423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058004424 catalytic residue [active] 1005058004425 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1005058004426 putative Ile/Val binding site [chemical binding]; other site 1005058004427 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1005058004428 putative Ile/Val binding site [chemical binding]; other site 1005058004429 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1005058004430 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1005058004431 putative catalytic cysteine [active] 1005058004432 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1005058004433 putative active site [active] 1005058004434 metal binding site [ion binding]; metal-binding site 1005058004435 Predicted membrane protein [Function unknown]; Region: COG3671 1005058004436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 1005058004437 RNase E inhibitor protein; Provisional; Region: PRK11191 1005058004438 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1005058004439 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1005058004440 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1005058004441 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1005058004442 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1005058004443 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1005058004444 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1005058004445 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1005058004446 shikimate binding site; other site 1005058004447 NAD(P) binding site [chemical binding]; other site 1005058004448 Pirin-related protein [General function prediction only]; Region: COG1741 1005058004449 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058004450 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058004451 Probable transposase; Region: OrfB_IS605; pfam01385 1005058004452 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058004453 Pirin-related protein [General function prediction only]; Region: COG1741 1005058004454 Pirin; Region: Pirin; pfam02678 1005058004455 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1005058004456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058004457 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058004458 Probable transposase; Region: OrfB_IS605; pfam01385 1005058004459 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058004460 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1005058004461 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1005058004462 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1005058004463 dimer interface [polypeptide binding]; other site 1005058004464 tetramer interface [polypeptide binding]; other site 1005058004465 PYR/PP interface [polypeptide binding]; other site 1005058004466 TPP binding site [chemical binding]; other site 1005058004467 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1005058004468 TPP-binding site; other site 1005058004469 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1005058004470 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1005058004471 aminotransferase AlaT; Validated; Region: PRK09265 1005058004472 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 1005058004473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058004474 homodimer interface [polypeptide binding]; other site 1005058004475 catalytic residue [active] 1005058004476 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005058004477 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1005058004478 substrate binding site [chemical binding]; other site 1005058004479 ATP binding site [chemical binding]; other site 1005058004480 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1005058004481 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1005058004482 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005058004483 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1005058004484 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1005058004485 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1005058004486 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005058004487 EamA-like transporter family; Region: EamA; pfam00892 1005058004488 EamA-like transporter family; Region: EamA; pfam00892 1005058004489 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1005058004490 GTP1/OBG; Region: GTP1_OBG; pfam01018 1005058004491 Obg GTPase; Region: Obg; cd01898 1005058004492 G1 box; other site 1005058004493 GTP/Mg2+ binding site [chemical binding]; other site 1005058004494 Switch I region; other site 1005058004495 G2 box; other site 1005058004496 G3 box; other site 1005058004497 Switch II region; other site 1005058004498 G4 box; other site 1005058004499 G5 box; other site 1005058004500 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1005058004501 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 1005058004502 putative substrate translocation pore; other site 1005058004503 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1005058004504 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1005058004505 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1005058004506 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1005058004507 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1005058004508 RNase E interface [polypeptide binding]; other site 1005058004509 trimer interface [polypeptide binding]; other site 1005058004510 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1005058004511 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1005058004512 RNase E interface [polypeptide binding]; other site 1005058004513 trimer interface [polypeptide binding]; other site 1005058004514 active site 1005058004515 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 1005058004516 putative nucleic acid binding region [nucleotide binding]; other site 1005058004517 G-X-X-G motif; other site 1005058004518 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 1005058004519 RNA binding site [nucleotide binding]; other site 1005058004520 domain interface; other site 1005058004521 TPR repeat; Region: TPR_11; pfam13414 1005058004522 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 1005058004523 binding surface 1005058004524 TPR motif; other site 1005058004525 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1005058004526 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1005058004527 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 1005058004528 ATP binding site [chemical binding]; other site 1005058004529 Mg++ binding site [ion binding]; other site 1005058004530 motif III; other site 1005058004531 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 1005058004532 nucleotide binding region [chemical binding]; other site 1005058004533 ATP-binding site [chemical binding]; other site 1005058004534 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1005058004535 putative RNA binding site [nucleotide binding]; other site 1005058004536 putative global regulator; Reviewed; Region: PRK09559 1005058004537 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1005058004538 hypothetical protein; Provisional; Region: PRK11820 1005058004539 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1005058004540 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1005058004541 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1005058004542 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1005058004543 domain interface [polypeptide binding]; other site 1005058004544 putative active site [active] 1005058004545 catalytic site [active] 1005058004546 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1005058004547 domain interface [polypeptide binding]; other site 1005058004548 putative active site [active] 1005058004549 catalytic site [active] 1005058004550 putative methyltransferase; Provisional; Region: PRK10864 1005058004551 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1005058004552 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1005058004553 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1005058004554 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1005058004555 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1005058004556 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1005058004557 putative active site [active] 1005058004558 putative PHP Thumb interface [polypeptide binding]; other site 1005058004559 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 1005058004560 generic binding surface II; other site 1005058004561 generic binding surface I; other site 1005058004562 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1005058004563 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1005058004564 anti sigma factor interaction site; other site 1005058004565 regulatory phosphorylation site [posttranslational modification]; other site 1005058004566 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1005058004567 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1005058004568 mce related protein; Region: MCE; pfam02470 1005058004569 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1005058004570 conserved hypothetical integral membrane protein; Region: TIGR00056 1005058004571 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1005058004572 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1005058004573 Walker A/P-loop; other site 1005058004574 ATP binding site [chemical binding]; other site 1005058004575 Q-loop/lid; other site 1005058004576 ABC transporter signature motif; other site 1005058004577 Walker B; other site 1005058004578 D-loop; other site 1005058004579 H-loop/switch region; other site 1005058004580 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1005058004581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1005058004582 OstA-like protein; Region: OstA; cl00844 1005058004583 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1005058004584 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1005058004585 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1005058004586 Walker A/P-loop; other site 1005058004587 ATP binding site [chemical binding]; other site 1005058004588 Q-loop/lid; other site 1005058004589 ABC transporter signature motif; other site 1005058004590 Walker B; other site 1005058004591 D-loop; other site 1005058004592 H-loop/switch region; other site 1005058004593 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 1005058004594 active site 1005058004595 phosphorylation site [posttranslational modification] 1005058004596 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1005058004597 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 1005058004598 nucleoside/Zn binding site; other site 1005058004599 dimer interface [polypeptide binding]; other site 1005058004600 catalytic motif [active] 1005058004601 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1005058004602 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 1005058004603 putative active site [active] 1005058004604 putative dimer interface [polypeptide binding]; other site 1005058004605 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005058004606 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 1005058004607 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1005058004608 active site 1005058004609 catalytic site [active] 1005058004610 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1005058004611 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1005058004612 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1005058004613 tetrameric interface [polypeptide binding]; other site 1005058004614 NAD binding site [chemical binding]; other site 1005058004615 catalytic residues [active] 1005058004616 putative transporter; Validated; Region: PRK03818 1005058004617 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1005058004618 TrkA-C domain; Region: TrkA_C; pfam02080 1005058004619 TrkA-C domain; Region: TrkA_C; pfam02080 1005058004620 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1005058004621 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1005058004622 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1005058004623 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1005058004624 TPR repeat; Region: TPR_11; pfam13414 1005058004625 Sel1-like repeats; Region: SEL1; smart00671 1005058004626 KWG Leptospira; Region: KWG; pfam07656 1005058004627 DNA topoisomerase 2-like protein; Provisional; Region: PTZ00108 1005058004628 Flavin Reductases; Region: FlaRed; cl00801 1005058004629 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1005058004630 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005058004631 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1005058004632 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1005058004633 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1005058004634 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 1005058004635 carboxyltransferase (CT) interaction site; other site 1005058004636 biotinylation site [posttranslational modification]; other site 1005058004637 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 1005058004638 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1005058004639 active site 1005058004640 trimer interface [polypeptide binding]; other site 1005058004641 dimer interface [polypeptide binding]; other site 1005058004642 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1005058004643 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1005058004644 putative ligand binding site [chemical binding]; other site 1005058004645 putative NAD binding site [chemical binding]; other site 1005058004646 catalytic site [active] 1005058004647 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 1005058004648 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005058004649 catalytic residues [active] 1005058004650 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 1005058004651 SmpB-tmRNA interface; other site 1005058004652 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1005058004653 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 1005058004654 dimer interface [polypeptide binding]; other site 1005058004655 active site 1005058004656 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1005058004657 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 1005058004658 substrate binding site [chemical binding]; other site 1005058004659 oxyanion hole (OAH) forming residues; other site 1005058004660 trimer interface [polypeptide binding]; other site 1005058004661 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1005058004662 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1005058004663 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 1005058004664 S-adenosylmethionine binding site [chemical binding]; other site 1005058004665 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005058004666 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1005058004667 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005058004668 active site 1005058004669 metal binding site [ion binding]; metal-binding site 1005058004670 hexamer interface [polypeptide binding]; other site 1005058004671 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1005058004672 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 1005058004673 dimer interface [polypeptide binding]; other site 1005058004674 ADP-ribose binding site [chemical binding]; other site 1005058004675 active site 1005058004676 nudix motif; other site 1005058004677 metal binding site [ion binding]; metal-binding site 1005058004678 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1005058004679 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1005058004680 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1005058004681 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1005058004682 HIGH motif; other site 1005058004683 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1005058004684 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005058004685 active site 1005058004686 KMSKS motif; other site 1005058004687 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1005058004688 tRNA binding surface [nucleotide binding]; other site 1005058004689 Lipopolysaccharide-assembly; Region: LptE; cl01125 1005058004690 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1005058004691 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1005058004692 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 1005058004693 active site 1005058004694 8-oxo-dGMP binding site [chemical binding]; other site 1005058004695 nudix motif; other site 1005058004696 metal binding site [ion binding]; metal-binding site 1005058004697 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1005058004698 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1005058004699 SEC-C motif; Region: SEC-C; pfam02810 1005058004700 Protein of unknown function (DUF721); Region: DUF721; cl02324 1005058004701 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1005058004702 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1005058004703 active site 1005058004704 dimer interface [polypeptide binding]; other site 1005058004705 metal binding site [ion binding]; metal-binding site 1005058004706 shikimate kinase; Reviewed; Region: aroK; PRK00131 1005058004707 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 1005058004708 ADP binding site [chemical binding]; other site 1005058004709 magnesium binding site [ion binding]; other site 1005058004710 putative shikimate binding site; other site 1005058004711 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005058004712 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1005058004713 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1005058004714 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1005058004715 Transglycosylase; Region: Transgly; pfam00912 1005058004716 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1005058004717 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1005058004718 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 1005058004719 putative deacylase active site [active] 1005058004720 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1005058004721 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 1005058004722 homodimer interface [polypeptide binding]; other site 1005058004723 substrate-cofactor binding pocket; other site 1005058004724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058004725 catalytic residue [active] 1005058004726 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1005058004727 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1005058004728 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1005058004729 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1005058004730 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 1005058004731 dimer interface [polypeptide binding]; other site 1005058004732 ssDNA binding site [nucleotide binding]; other site 1005058004733 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005058004734 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1005058004735 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1005058004736 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1005058004737 putative active site [active] 1005058004738 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1005058004739 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1005058004740 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1005058004741 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1005058004742 active site 1005058004743 (T/H)XGH motif; other site 1005058004744 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1005058004745 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1005058004746 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 1005058004747 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1005058004748 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1005058004749 putative metal binding site; other site 1005058004750 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1005058004751 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 1005058004752 Substrate binding site; other site 1005058004753 metal-binding site 1005058004754 elongation factor P; Validated; Region: PRK00529 1005058004755 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1005058004756 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 1005058004757 RNA binding site [nucleotide binding]; other site 1005058004758 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 1005058004759 RNA binding site [nucleotide binding]; other site 1005058004760 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 1005058004761 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1005058004762 FeS/SAM binding site; other site 1005058004763 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1005058004764 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 1005058004765 30S subunit binding site; other site 1005058004766 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1005058004767 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 1005058004768 S-adenosylmethionine binding site [chemical binding]; other site 1005058004769 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 1005058004770 S-adenosylmethionine binding site [chemical binding]; other site 1005058004771 hypothetical protein; Provisional; Region: PRK11212 1005058004772 DJ-1 family protein; Region: not_thiJ; TIGR01383 1005058004773 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1005058004774 conserved cys residue [active] 1005058004775 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1005058004776 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1005058004777 putative NAD(P) binding site [chemical binding]; other site 1005058004778 maltose O-acetyltransferase; Provisional; Region: PRK10092 1005058004779 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 1005058004780 active site 1005058004781 substrate binding site [chemical binding]; other site 1005058004782 trimer interface [polypeptide binding]; other site 1005058004783 CoA binding site [chemical binding]; other site 1005058004784 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1005058004785 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1005058004786 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005058004787 ATP-grasp domain; Region: ATP-grasp; pfam02222 1005058004788 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 1005058004789 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005058004790 D-ribose pyranase; Provisional; Region: PRK11797 1005058004791 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1005058004792 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005058004793 Walker A/P-loop; other site 1005058004794 ATP binding site [chemical binding]; other site 1005058004795 Q-loop/lid; other site 1005058004796 ABC transporter signature motif; other site 1005058004797 Walker B; other site 1005058004798 D-loop; other site 1005058004799 H-loop/switch region; other site 1005058004800 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005058004801 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005058004802 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 1005058004803 TM-ABC transporter signature motif; other site 1005058004804 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1005058004805 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1005058004806 ligand binding site [chemical binding]; other site 1005058004807 dimerization interface [polypeptide binding]; other site 1005058004808 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005058004809 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 1005058004810 substrate binding site [chemical binding]; other site 1005058004811 dimer interface [polypeptide binding]; other site 1005058004812 ATP binding site [chemical binding]; other site 1005058004813 transcriptional repressor RbsR; Provisional; Region: PRK10423 1005058004814 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058004815 DNA binding site [nucleotide binding] 1005058004816 domain linker motif; other site 1005058004817 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 1005058004818 dimerization interface [polypeptide binding]; other site 1005058004819 ligand binding site [chemical binding]; other site 1005058004820 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1005058004821 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1005058004822 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 1005058004823 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1005058004824 DctM-like transporters; Region: DctM; pfam06808 1005058004825 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1005058004826 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 1005058004827 ATP binding site [chemical binding]; other site 1005058004828 putative Mg++ binding site [ion binding]; other site 1005058004829 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 1005058004830 nucleotide binding region [chemical binding]; other site 1005058004831 ATP-binding site [chemical binding]; other site 1005058004832 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1005058004833 HRDC domain; Region: HRDC; pfam00570 1005058004834 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 1005058004835 dimerization interface [polypeptide binding]; other site 1005058004836 substrate binding site [chemical binding]; other site 1005058004837 active site 1005058004838 calcium binding site [ion binding]; other site 1005058004839 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1005058004840 putative iron binding site [ion binding]; other site 1005058004841 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1005058004842 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1005058004843 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1005058004844 active site 1005058004845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005058004846 substrate binding site [chemical binding]; other site 1005058004847 catalytic residues [active] 1005058004848 dimer interface [polypeptide binding]; other site 1005058004849 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1005058004850 benzoate transport; Region: 2A0115; TIGR00895 1005058004851 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 1005058004852 putative substrate translocation pore; other site 1005058004853 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 1005058004854 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1005058004855 Predicted membrane protein [Function unknown]; Region: COG4541 1005058004856 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1005058004857 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 1005058004858 dimer interface [polypeptide binding]; other site 1005058004859 motif 1; other site 1005058004860 active site 1005058004861 motif 2; other site 1005058004862 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 1005058004863 putative deacylase active site [active] 1005058004864 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 1005058004865 active site 1005058004866 motif 3; other site 1005058004867 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 1005058004868 anticodon binding site; other site 1005058004869 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1005058004870 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1005058004871 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1005058004872 Na binding site [ion binding]; other site 1005058004873 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1005058004874 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1005058004875 S-adenosylmethionine binding site [chemical binding]; other site 1005058004876 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005058004877 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 1005058004878 substrate binding pocket [chemical binding]; other site 1005058004879 membrane-bound complex binding site; other site 1005058004880 hinge residues; other site 1005058004881 potential frameshift: common BLAST hit: gi|319776157|ref|YP_004138645.1| Methyltransferase type 11 1005058004882 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 1005058004883 S-adenosylmethionine binding site [chemical binding]; other site 1005058004884 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1005058004885 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 1005058004886 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1005058004887 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1005058004888 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1005058004889 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1005058004890 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1005058004891 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 1005058004892 putative NAD(P) binding site [chemical binding]; other site 1005058004893 active site 1005058004894 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1005058004895 active site 1005058004896 intersubunit interactions; other site 1005058004897 catalytic residue [active] 1005058004898 Glucitol operon activator protein (GutM); Region: GutM; cl01890 1005058004899 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1005058004900 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1005058004901 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005058004902 hypothetical protein; Reviewed; Region: PRK01637 1005058004903 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 1005058004904 putative active site [active] 1005058004905 dimerization interface [polypeptide binding]; other site 1005058004906 putative tRNAtyr binding site [nucleotide binding]; other site 1005058004907 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1005058004908 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1005058004909 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1005058004910 RimM N-terminal domain; Region: RimM; pfam01782 1005058004911 PRC-barrel domain; Region: PRC; pfam05239 1005058004912 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1005058004913 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1005058004914 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1005058004915 active site 1005058004916 metal binding site [ion binding]; metal-binding site 1005058004917 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1005058004918 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1005058004919 TolA protein; Region: tolA_full; TIGR02794 1005058004920 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1005058004921 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1005058004922 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1005058004923 putative active site [active] 1005058004924 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1005058004925 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1005058004926 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1005058004927 YcfA-like protein; Region: YcfA; pfam07927 1005058004928 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005058004929 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005058004930 trimer interface [polypeptide binding]; other site 1005058004931 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005058004932 trimer interface [polypeptide binding]; other site 1005058004933 Haemagglutinin; Region: HIM; pfam05662 1005058004934 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1005058004935 Haemagglutinin; Region: HIM; pfam05662 1005058004936 YadA-like C-terminal region; Region: YadA; pfam03895 1005058004937 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1005058004938 Flavoprotein; Region: Flavoprotein; pfam02441 1005058004939 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1005058004940 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 1005058004941 motif 1; other site 1005058004942 active site 1005058004943 motif 2; other site 1005058004944 motif 3; other site 1005058004945 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1005058004946 DHHA1 domain; Region: DHHA1; pfam02272 1005058004947 carbon storage regulator; Provisional; Region: PRK01712 1005058004948 phosphomannomutase CpsG; Provisional; Region: PRK15414 1005058004949 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 1005058004950 active site 1005058004951 substrate binding site [chemical binding]; other site 1005058004952 metal binding site [ion binding]; metal-binding site 1005058004953 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1005058004954 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1005058004955 active site 1005058004956 tetramer interface; other site 1005058004957 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1005058004958 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 1005058004959 putative substrate translocation pore; other site 1005058004960 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1005058004961 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1005058004962 active site 1005058004963 catalytic site [active] 1005058004964 metal binding site [ion binding]; metal-binding site 1005058004965 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1005058004966 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1005058004967 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1005058004968 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1005058004969 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 1005058004970 FMN binding site [chemical binding]; other site 1005058004971 active site 1005058004972 catalytic residues [active] 1005058004973 substrate binding site [chemical binding]; other site 1005058004974 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1005058004975 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1005058004976 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1005058004977 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1005058004978 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1005058004979 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1005058004980 Predicted membrane protein [Function unknown]; Region: COG3817 1005058004981 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1005058004982 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1005058004983 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005058004984 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 1005058004985 dimer interface [polypeptide binding]; other site 1005058004986 conserved gate region; other site 1005058004987 putative PBP binding loops; other site 1005058004988 ABC-ATPase subunit interface; other site 1005058004989 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1005058004990 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1005058004991 Walker A/P-loop; other site 1005058004992 ATP binding site [chemical binding]; other site 1005058004993 Q-loop/lid; other site 1005058004994 ABC transporter signature motif; other site 1005058004995 Walker B; other site 1005058004996 D-loop; other site 1005058004997 H-loop/switch region; other site 1005058004998 Predicted transcriptional regulator [Transcription]; Region: COG2944 1005058004999 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 1005058005000 non-specific DNA binding site [nucleotide binding]; other site 1005058005001 salt bridge; other site 1005058005002 sequence-specific DNA binding site [nucleotide binding]; other site 1005058005003 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1005058005004 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1005058005005 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1005058005006 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 1005058005007 sequence-specific DNA binding site [nucleotide binding]; other site 1005058005008 salt bridge; other site 1005058005009 potential frameshift: common BLAST hit: gi|170717690|ref|YP_001784764.1| filamentation induced by cAMP protein Fic 1005058005010 Fic/DOC family; Region: Fic; cl00960 1005058005011 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1005058005012 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1005058005013 FIC domain binding interface [polypeptide binding]; other site 1005058005014 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1005058005015 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1005058005016 active site 1005058005017 HIGH motif; other site 1005058005018 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1005058005019 KMSKS motif; other site 1005058005020 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1005058005021 tRNA binding surface [nucleotide binding]; other site 1005058005022 anticodon binding site; other site 1005058005023 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 1005058005024 substrate binding site [chemical binding]; other site 1005058005025 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 1005058005026 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1005058005027 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1005058005028 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1005058005029 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1005058005030 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1005058005031 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1005058005032 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1005058005033 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1005058005034 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 1005058005035 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1005058005036 Mor transcription activator family; Region: Mor; pfam08765 1005058005037 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 1005058005038 amidase catalytic site [active] 1005058005039 Zn binding residues [ion binding]; other site 1005058005040 substrate binding site [chemical binding]; other site 1005058005041 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1005058005042 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1005058005043 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1005058005044 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1005058005045 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1005058005046 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1005058005047 Terminase-like family; Region: Terminase_6; pfam03237 1005058005048 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1005058005049 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1005058005050 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1005058005051 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1005058005052 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1005058005053 Gp37 protein; Region: Gp37; pfam09646 1005058005054 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1005058005055 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1005058005056 Phage tail tube protein FII; Region: Phage_tube; cl01390 1005058005057 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1005058005058 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1005058005059 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1005058005060 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1005058005061 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1005058005062 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1005058005063 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1005058005064 Baseplate J-like protein; Region: Baseplate_J; cl01294 1005058005065 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1005058005066 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1005058005067 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 1005058005068 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1005058005069 active site 1005058005070 DNA binding site [nucleotide binding] 1005058005071 Int/Topo IB signature motif; other site 1005058005072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1005058005073 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 1005058005074 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1005058005075 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1005058005076 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1005058005077 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1005058005078 active site 1005058005079 NTP binding site [chemical binding]; other site 1005058005080 metal binding triad [ion binding]; metal-binding site 1005058005081 antibiotic binding site [chemical binding]; other site 1005058005082 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1005058005083 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1005058005084 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1005058005085 putative active site [active] 1005058005086 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1005058005087 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1005058005088 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1005058005089 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1005058005090 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1005058005091 active site 1005058005092 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1005058005093 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 1005058005094 ADP-ribose binding site [chemical binding]; other site 1005058005095 dimer interface [polypeptide binding]; other site 1005058005096 active site 1005058005097 nudix motif; other site 1005058005098 metal binding site [ion binding]; metal-binding site 1005058005099 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 1005058005100 RNA binding surface [nucleotide binding]; other site 1005058005101 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1005058005102 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1005058005103 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1005058005104 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1005058005105 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1005058005106 NAD(P) binding site [chemical binding]; other site 1005058005107 catalytic residues [active] 1005058005108 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1005058005109 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1005058005110 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1005058005111 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1005058005112 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1005058005113 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1005058005114 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1005058005115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005058005116 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 1005058005117 DNA binding residues [nucleotide binding] 1005058005118 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1005058005119 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1005058005120 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005058005121 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1005058005122 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1005058005123 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1005058005124 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1005058005125 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1005058005126 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1005058005127 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1005058005128 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1005058005129 Walker A/P-loop; other site 1005058005130 ATP binding site [chemical binding]; other site 1005058005131 Q-loop/lid; other site 1005058005132 ABC transporter signature motif; other site 1005058005133 Walker B; other site 1005058005134 D-loop; other site 1005058005135 H-loop/switch region; other site 1005058005136 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1005058005137 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1005058005138 Walker A/P-loop; other site 1005058005139 ATP binding site [chemical binding]; other site 1005058005140 Q-loop/lid; other site 1005058005141 ABC transporter signature motif; other site 1005058005142 Walker B; other site 1005058005143 D-loop; other site 1005058005144 H-loop/switch region; other site 1005058005145 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005058005146 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005058005147 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1005058005148 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 1005058005149 S-adenosylmethionine binding site [chemical binding]; other site 1005058005150 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1005058005151 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 1005058005152 ATP binding site [chemical binding]; other site 1005058005153 Mg++ binding site [ion binding]; other site 1005058005154 motif III; other site 1005058005155 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 1005058005156 nucleotide binding region [chemical binding]; other site 1005058005157 ATP-binding site [chemical binding]; other site 1005058005158 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1005058005159 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1005058005160 Substrate binding site; other site 1005058005161 Mg++ binding site; other site 1005058005162 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 1005058005163 active site 1005058005164 substrate binding site [chemical binding]; other site 1005058005165 CoA binding site [chemical binding]; other site 1005058005166 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 1005058005167 Kelch motif; Region: Kelch_1; pfam01344 1005058005168 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058005169 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058005170 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058005171 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1005058005172 Protein of unknown function DUF262; Region: DUF262; pfam03235 1005058005173 Protein of unknown function DUF262; Region: DUF262; pfam03235 1005058005174 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1005058005175 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 1005058005176 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1005058005177 substrate binding site [chemical binding]; other site 1005058005178 hexamer interface [polypeptide binding]; other site 1005058005179 metal binding site [ion binding]; metal-binding site 1005058005180 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1005058005181 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1005058005182 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 1005058005183 motif II; other site 1005058005184 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1005058005185 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1005058005186 active site 1005058005187 HIGH motif; other site 1005058005188 dimer interface [polypeptide binding]; other site 1005058005189 KMSKS motif; other site 1005058005190 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1005058005191 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1005058005192 active site 1005058005193 Int/Topo IB signature motif; other site 1005058005194 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1005058005195 Na2 binding site [ion binding]; other site 1005058005196 putative substrate binding site 1 [chemical binding]; other site 1005058005197 Na binding site 1 [ion binding]; other site 1005058005198 putative substrate binding site 2 [chemical binding]; other site 1005058005199 hypothetical protein; Validated; Region: PRK06886 1005058005200 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 1005058005201 active site 1005058005202 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1005058005203 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 1005058005204 putative substrate translocation pore; other site 1005058005205 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1005058005206 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 1005058005207 active site 1005058005208 dimerization interface [polypeptide binding]; other site 1005058005209 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005058005210 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005058005211 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005058005212 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1005058005213 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1005058005214 Metal-binding active site; metal-binding site 1005058005215 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1005058005216 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005058005217 PYR/PP interface [polypeptide binding]; other site 1005058005218 dimer interface [polypeptide binding]; other site 1005058005219 TPP binding site [chemical binding]; other site 1005058005220 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005058005221 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1005058005222 TPP-binding site; other site 1005058005223 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005058005224 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1005058005225 substrate binding site [chemical binding]; other site 1005058005226 ATP binding site [chemical binding]; other site 1005058005227 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1005058005228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1005058005229 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1005058005230 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005058005231 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 1005058005232 putative active site [active] 1005058005233 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1005058005234 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1005058005235 DctM-like transporters; Region: DctM; pfam06808 1005058005236 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1005058005237 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005058005238 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058005239 DNA binding site [nucleotide binding] 1005058005240 domain linker motif; other site 1005058005241 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1005058005242 putative dimerization interface [polypeptide binding]; other site 1005058005243 putative ligand binding site [chemical binding]; other site 1005058005244 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005058005245 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1005058005246 substrate binding site [chemical binding]; other site 1005058005247 ATP binding site [chemical binding]; other site 1005058005248 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1005058005249 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1005058005250 dimerization interface [polypeptide binding]; other site 1005058005251 ligand binding site [chemical binding]; other site 1005058005252 NADP binding site [chemical binding]; other site 1005058005253 catalytic site [active] 1005058005254 oligopeptidase A; Provisional; Region: PRK10911 1005058005255 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1005058005256 active site 1005058005257 Zn binding site [ion binding]; other site 1005058005258 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1005058005259 amino acid carrier protein; Region: agcS; TIGR00835 1005058005260 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1005058005261 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 1005058005262 dimerization interface [polypeptide binding]; other site 1005058005263 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 1005058005264 dimer interface [polypeptide binding]; other site 1005058005265 phosphorylation site [posttranslational modification] 1005058005266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058005267 ATP binding site [chemical binding]; other site 1005058005268 Mg2+ binding site [ion binding]; other site 1005058005269 G-X-G motif; other site 1005058005270 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1005058005271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058005272 active site 1005058005273 intermolecular recognition site; other site 1005058005274 dimerization interface [polypeptide binding]; other site 1005058005275 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 1005058005276 DNA binding site [nucleotide binding] 1005058005277 peroxidase; Provisional; Region: PRK15000 1005058005278 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 1005058005279 dimer interface [polypeptide binding]; other site 1005058005280 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1005058005281 catalytic triad [active] 1005058005282 peroxidatic and resolving cysteines [active] 1005058005283 cystathionine beta-lyase; Provisional; Region: PRK08114 1005058005284 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 1005058005285 homodimer interface [polypeptide binding]; other site 1005058005286 substrate-cofactor binding pocket; other site 1005058005287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058005288 catalytic residue [active] 1005058005289 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 1005058005290 binding surface 1005058005291 TPR motif; other site 1005058005292 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1005058005293 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005058005294 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005058005295 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1005058005296 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1005058005297 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1005058005298 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1005058005299 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 1005058005300 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1005058005301 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1005058005302 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1005058005303 putative dimerization interface [polypeptide binding]; other site 1005058005304 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005058005305 putative ligand binding site [chemical binding]; other site 1005058005306 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005058005307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005058005308 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1005058005309 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 1005058005310 generic binding surface II; other site 1005058005311 generic binding surface I; other site 1005058005312 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1005058005313 hypothetical protein; Validated; Region: PRK01777 1005058005314 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1005058005315 putative coenzyme Q binding site [chemical binding]; other site 1005058005316 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1005058005317 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1005058005318 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1005058005319 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 1005058005320 putative active site [active] 1005058005321 catalytic residue [active] 1005058005322 GTP-binding protein YchF; Reviewed; Region: PRK09601 1005058005323 YchF GTPase; Region: YchF; cd01900 1005058005324 G1 box; other site 1005058005325 GTP/Mg2+ binding site [chemical binding]; other site 1005058005326 Switch I region; other site 1005058005327 G2 box; other site 1005058005328 Switch II region; other site 1005058005329 G3 box; other site 1005058005330 G4 box; other site 1005058005331 G5 box; other site 1005058005332 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 1005058005333 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 1005058005334 active site 1005058005335 multimer interface [polypeptide binding]; other site 1005058005336 aminopeptidase B; Provisional; Region: PRK05015 1005058005337 Peptidase; Region: DUF3663; pfam12404 1005058005338 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 1005058005339 interface (dimer of trimers) [polypeptide binding]; other site 1005058005340 Substrate-binding/catalytic site; other site 1005058005341 Zn-binding sites [ion binding]; other site 1005058005342 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1005058005343 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_4; cd07268 1005058005344 putative metal binding site [ion binding]; other site 1005058005345 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1005058005346 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1005058005347 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1005058005348 active site 1005058005349 HIGH motif; other site 1005058005350 KMSK motif region; other site 1005058005351 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1005058005352 tRNA binding surface [nucleotide binding]; other site 1005058005353 anticodon binding site; other site 1005058005354 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1005058005355 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1005058005356 Na2 binding site [ion binding]; other site 1005058005357 putative substrate binding site 1 [chemical binding]; other site 1005058005358 Na binding site 1 [ion binding]; other site 1005058005359 putative substrate binding site 2 [chemical binding]; other site 1005058005360 endonuclease III; Provisional; Region: PRK10702 1005058005361 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005058005362 minor groove reading motif; other site 1005058005363 helix-hairpin-helix signature motif; other site 1005058005364 substrate binding pocket [chemical binding]; other site 1005058005365 active site 1005058005366 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1005058005367 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1005058005368 FMN-binding domain; Region: FMN_bind; cl01081 1005058005369 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1005058005370 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1005058005371 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1005058005372 SLBB domain; Region: SLBB; pfam10531 1005058005373 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 1005058005374 ferredoxin; Provisional; Region: PRK08764 1005058005375 Putative Fe-S cluster; Region: FeS; pfam04060 1005058005376 4Fe-4S binding domain; Region: Fer4; pfam00037 1005058005377 4Fe-4S binding domain; Region: Fer4; cl02805 1005058005378 electron transport complex protein RsxA; Provisional; Region: PRK05151 1005058005379 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1005058005380 putative active site [active] 1005058005381 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 1005058005382 putative active site [active] 1005058005383 Ap4A binding site [chemical binding]; other site 1005058005384 nudix motif; other site 1005058005385 putative metal binding site [ion binding]; other site 1005058005386 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1005058005387 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1005058005388 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1005058005389 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 1005058005390 dimerization interface [polypeptide binding]; other site 1005058005391 active site 1005058005392 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1005058005393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058005394 Walker A/P-loop; other site 1005058005395 ATP binding site [chemical binding]; other site 1005058005396 Q-loop/lid; other site 1005058005397 ABC transporter signature motif; other site 1005058005398 Walker B; other site 1005058005399 D-loop; other site 1005058005400 H-loop/switch region; other site 1005058005401 heme exporter protein CcmB; Region: ccmB; TIGR01190 1005058005402 heme exporter protein CcmC; Region: ccmC; TIGR01191 1005058005403 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1005058005404 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1005058005405 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1005058005406 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1005058005407 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1005058005408 catalytic residues [active] 1005058005409 central insert; other site 1005058005410 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1005058005411 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1005058005412 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1005058005413 Domain of unknown function (DUF1824); Region: DUF1824; pfam08854 1005058005414 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 1005058005415 TPR motif; other site 1005058005416 binding surface 1005058005417 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 1005058005418 Walker A motif; other site 1005058005419 putative transporter; Provisional; Region: PRK10504 1005058005420 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 1005058005421 putative substrate translocation pore; other site 1005058005422 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 1005058005423 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005058005424 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1005058005425 peptide binding site [polypeptide binding]; other site 1005058005426 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1005058005427 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 1005058005428 NAD binding site [chemical binding]; other site 1005058005429 dimerization interface [polypeptide binding]; other site 1005058005430 product binding site; other site 1005058005431 substrate binding site [chemical binding]; other site 1005058005432 zinc binding site [ion binding]; other site 1005058005433 catalytic residues [active] 1005058005434 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1005058005435 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1005058005436 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1005058005437 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005058005438 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 1005058005439 S-adenosylmethionine binding site [chemical binding]; other site 1005058005440 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1005058005441 aromatic amino acid transport protein; Region: araaP; TIGR00837 1005058005442 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1005058005443 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1005058005444 Nucleoside recognition; Region: Gate; pfam07670 1005058005445 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1005058005446 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1005058005447 intersubunit interface [polypeptide binding]; other site 1005058005448 active site 1005058005449 catalytic residue [active] 1005058005450 phosphopentomutase; Provisional; Region: PRK05362 1005058005451 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1005058005452 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1005058005453 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1005058005454 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1005058005455 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 1005058005456 inhibitor-cofactor binding pocket; inhibition site 1005058005457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058005458 catalytic residue [active] 1005058005459 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 1005058005460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058005461 catalytic residue [active] 1005058005462 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1005058005463 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1005058005464 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1005058005465 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1005058005466 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1005058005467 GTP binding site; other site 1005058005468 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1005058005469 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 1005058005470 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1005058005471 catalytic residues [active] 1005058005472 hinge region; other site 1005058005473 alpha helical domain; other site 1005058005474 hypothetical protein; Provisional; Region: PRK11027 1005058005475 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1005058005476 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1005058005477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1005058005478 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1005058005479 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1005058005480 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1005058005481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1005058005482 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1005058005483 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1005058005484 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005058005485 Glucuronate isomerase; Region: UxaC; pfam02614 1005058005486 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1005058005487 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1005058005488 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1005058005489 putative NAD(P) binding site [chemical binding]; other site 1005058005490 active site 1005058005491 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1005058005492 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1005058005493 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1005058005494 DctM-like transporters; Region: DctM; pfam06808 1005058005495 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1005058005496 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1005058005497 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1005058005498 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 1005058005499 putative active site [active] 1005058005500 putative catalytic site [active] 1005058005501 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1005058005502 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005058005503 DNA-binding site [nucleotide binding]; DNA binding site 1005058005504 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1005058005505 mannonate dehydratase; Provisional; Region: PRK03906 1005058005506 mannonate dehydratase; Region: uxuA; TIGR00695 1005058005507 RTX toxin acyltransferase family; Region: HlyC; cl01131 1005058005508 RTX N-terminal domain; Region: RTX; pfam02382 1005058005509 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1005058005510 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1005058005511 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 1005058005512 active site 1005058005513 dimerization interface [polypeptide binding]; other site 1005058005514 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1005058005515 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1005058005516 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1005058005517 Rrf2 family protein; Region: rrf2_super; TIGR00738 1005058005518 cysteine desulfurase; Provisional; Region: PRK14012 1005058005519 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1005058005520 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005058005521 catalytic residue [active] 1005058005522 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1005058005523 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1005058005524 trimerization site [polypeptide binding]; other site 1005058005525 active site 1005058005526 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1005058005527 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1005058005528 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; cl02542 1005058005529 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1005058005530 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1005058005531 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1005058005532 nucleotide binding site [chemical binding]; other site 1005058005533 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1005058005534 SBD interface [polypeptide binding]; other site 1005058005535 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1005058005536 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 1005058005537 catalytic loop [active] 1005058005538 iron binding site [ion binding]; other site 1005058005539 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1005058005540 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1005058005541 Sulfatase; Region: Sulfatase; pfam00884 1005058005542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1005058005543 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1005058005544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1005058005545 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1005058005546 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1005058005547 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058005548 DNA binding site [nucleotide binding] 1005058005549 domain linker motif; other site 1005058005550 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 1005058005551 putative ligand binding site [chemical binding]; other site 1005058005552 putative dimerization interface [polypeptide binding]; other site 1005058005553 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1005058005554 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1005058005555 G1 box; other site 1005058005556 putative GEF interaction site [polypeptide binding]; other site 1005058005557 GTP/Mg2+ binding site [chemical binding]; other site 1005058005558 Switch I region; other site 1005058005559 G2 box; other site 1005058005560 G3 box; other site 1005058005561 Switch II region; other site 1005058005562 G4 box; other site 1005058005563 G5 box; other site 1005058005564 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 1005058005565 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 1005058005566 glutamine synthetase; Provisional; Region: glnA; PRK09469 1005058005567 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1005058005568 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1005058005569 glutaredoxin 2; Provisional; Region: PRK10387 1005058005570 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005058005571 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 1005058005572 N-terminal domain interface [polypeptide binding]; other site 1005058005573 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1005058005574 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 1005058005575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058005576 homodimer interface [polypeptide binding]; other site 1005058005577 catalytic residue [active] 1005058005578 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1005058005579 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 1005058005580 active site 1005058005581 motif I; other site 1005058005582 motif II; other site 1005058005583 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1005058005584 putative active site pocket [active] 1005058005585 4-fold oligomerization interface [polypeptide binding]; other site 1005058005586 metal binding residues [ion binding]; metal-binding site 1005058005587 3-fold/trimer interface [polypeptide binding]; other site 1005058005588 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1005058005589 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1005058005590 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1005058005591 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1005058005592 putative active site [active] 1005058005593 oxyanion strand; other site 1005058005594 catalytic triad [active] 1005058005595 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 1005058005596 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1005058005597 catalytic residues [active] 1005058005598 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 1005058005599 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1005058005600 substrate binding site [chemical binding]; other site 1005058005601 glutamase interaction surface [polypeptide binding]; other site 1005058005602 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1005058005603 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1005058005604 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 1005058005605 metal binding site [ion binding]; metal-binding site 1005058005606 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 1005058005607 active site 1005058005608 thiamine phosphate binding site [chemical binding]; other site 1005058005609 pyrophosphate binding site [ion binding]; other site 1005058005610 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 1005058005611 dimer interface [polypeptide binding]; other site 1005058005612 substrate binding site [chemical binding]; other site 1005058005613 ATP binding site [chemical binding]; other site 1005058005614 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1005058005615 substrate binding site [chemical binding]; other site 1005058005616 multimerization interface [polypeptide binding]; other site 1005058005617 ATP binding site [chemical binding]; other site 1005058005618 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 1005058005619 NMT1/THI5 like; Region: NMT1; pfam09084 1005058005620 Putative transcription activator [Transcription]; Region: TenA; COG0819 1005058005621 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005058005622 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 1005058005623 dimer interface [polypeptide binding]; other site 1005058005624 conserved gate region; other site 1005058005625 putative PBP binding loops; other site 1005058005626 ABC-ATPase subunit interface; other site 1005058005627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058005628 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1005058005629 Walker A/P-loop; other site 1005058005630 ATP binding site [chemical binding]; other site 1005058005631 Q-loop/lid; other site 1005058005632 ABC transporter signature motif; other site 1005058005633 Walker B; other site 1005058005634 D-loop; other site 1005058005635 H-loop/switch region; other site 1005058005636 transketolase; Reviewed; Region: PRK12753 1005058005637 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 1005058005638 TPP-binding site [chemical binding]; other site 1005058005639 dimer interface [polypeptide binding]; other site 1005058005640 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 1005058005641 PYR/PP interface [polypeptide binding]; other site 1005058005642 dimer interface [polypeptide binding]; other site 1005058005643 TPP binding site [chemical binding]; other site 1005058005644 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1005058005645 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1005058005646 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 1005058005647 FMN binding site [chemical binding]; other site 1005058005648 active site 1005058005649 catalytic residues [active] 1005058005650 substrate binding site [chemical binding]; other site 1005058005651 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 1005058005652 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1005058005653 putative ion selectivity filter; other site 1005058005654 putative pore gating glutamate residue; other site 1005058005655 putative H+/Cl- coupling transport residue; other site 1005058005656 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1005058005657 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 1005058005658 amidase catalytic site [active] 1005058005659 Zn binding residues [ion binding]; other site 1005058005660 substrate binding site [chemical binding]; other site 1005058005661 putative major pilin subunit; Provisional; Region: PRK10574 1005058005662 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1005058005663 Type II/IV secretion system protein; Region: T2SE; pfam00437 1005058005664 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 1005058005665 Walker A motif; other site 1005058005666 ATP binding site [chemical binding]; other site 1005058005667 Walker B motif; other site 1005058005668 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1005058005669 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005058005670 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005058005671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058005672 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058005673 Probable transposase; Region: OrfB_IS605; pfam01385 1005058005674 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058005675 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1005058005676 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 1005058005677 CoA-binding site [chemical binding]; other site 1005058005678 ATP-binding [chemical binding]; other site 1005058005679 Domain of unknown function (DUF329); Region: DUF329; cl01144 1005058005680 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1005058005681 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1005058005682 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1005058005683 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1005058005684 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1005058005685 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1005058005686 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1005058005687 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 1005058005688 molybdopterin cofactor binding site; other site 1005058005689 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 1005058005690 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1005058005691 molybdopterin cofactor binding site; other site 1005058005692 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 1005058005693 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1005058005694 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1005058005695 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 1005058005696 active site 1005058005697 motif I; other site 1005058005698 motif II; other site 1005058005699 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 1005058005700 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1005058005701 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1005058005702 dimer interface [polypeptide binding]; other site 1005058005703 active site 1005058005704 catalytic residue [active] 1005058005705 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1005058005706 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 1005058005707 catalytic triad [active] 1005058005708 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005058005709 trimer interface [polypeptide binding]; other site 1005058005710 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005058005711 trimer interface [polypeptide binding]; other site 1005058005712 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005058005713 trimer interface [polypeptide binding]; other site 1005058005714 Haemagglutinin; Region: HIM; pfam05662 1005058005715 YadA-like C-terminal region; Region: YadA; pfam03895 1005058005716 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1005058005717 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1005058005718 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1005058005719 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 1005058005720 DsbD alpha interface [polypeptide binding]; other site 1005058005721 catalytic residues [active] 1005058005722 intracellular septation protein A; Reviewed; Region: PRK00259 1005058005723 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 1005058005724 YciI-like protein; Reviewed; Region: PRK11370 1005058005725 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1005058005726 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1005058005727 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1005058005728 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 1005058005729 motif II; other site 1005058005730 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1005058005731 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 1005058005732 active site 1005058005733 DNA binding site [nucleotide binding] 1005058005734 Int/Topo IB signature motif; other site 1005058005735 Protein of unknown function, DUF484; Region: DUF484; cl17449 1005058005736 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1005058005737 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1005058005738 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1005058005739 thymidine kinase; Provisional; Region: PRK04296 1005058005740 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1005058005741 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1005058005742 phosphate binding site [ion binding]; other site 1005058005743 putative substrate binding pocket [chemical binding]; other site 1005058005744 dimer interface [polypeptide binding]; other site 1005058005745 exoribonuclease II; Provisional; Region: PRK05054 1005058005746 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1005058005747 RNB domain; Region: RNB; pfam00773 1005058005748 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1005058005749 RNA binding site [nucleotide binding]; other site 1005058005750 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 1005058005751 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1005058005752 NAD binding site [chemical binding]; other site 1005058005753 homotetramer interface [polypeptide binding]; other site 1005058005754 homodimer interface [polypeptide binding]; other site 1005058005755 substrate binding site [chemical binding]; other site 1005058005756 active site 1005058005757 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 1005058005758 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1005058005759 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1005058005760 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13298 1005058005761 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1005058005762 active site 1005058005763 NTP binding site [chemical binding]; other site 1005058005764 metal binding triad [ion binding]; metal-binding site 1005058005765 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1005058005766 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1005058005767 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1005058005768 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1005058005769 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1005058005770 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1005058005771 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1005058005772 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1005058005773 putative active site [active] 1005058005774 putative metal binding residues [ion binding]; other site 1005058005775 signature motif; other site 1005058005776 putative triphosphate binding site [ion binding]; other site 1005058005777 DNA repair protein RadA; Provisional; Region: PRK11823 1005058005778 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 1005058005779 Walker A motif/ATP binding site; other site 1005058005780 ATP binding site [chemical binding]; other site 1005058005781 Walker B motif; other site 1005058005782 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1005058005783 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 1005058005784 rRNA interaction site [nucleotide binding]; other site 1005058005785 S8 interaction site; other site 1005058005786 putative laminin-1 binding site; other site 1005058005787 elongation factor Ts; Provisional; Region: tsf; PRK09377 1005058005788 UBA/TS-N domain; Region: UBA; pfam00627 1005058005789 Elongation factor TS; Region: EF_TS; pfam00889 1005058005790 Elongation factor TS; Region: EF_TS; pfam00889 1005058005791 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 1005058005792 putative nucleotide binding site [chemical binding]; other site 1005058005793 uridine monophosphate binding site [chemical binding]; other site 1005058005794 homohexameric interface [polypeptide binding]; other site 1005058005795 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1005058005796 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 1005058005797 hinge region; other site 1005058005798 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1005058005799 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1005058005800 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1005058005801 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1005058005802 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1005058005803 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1005058005804 catalytic residue [active] 1005058005805 putative FPP diphosphate binding site; other site 1005058005806 putative FPP binding hydrophobic cleft; other site 1005058005807 dimer interface [polypeptide binding]; other site 1005058005808 putative IPP diphosphate binding site; other site 1005058005809 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1005058005810 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1005058005811 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1005058005812 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 1005058005813 active site 1005058005814 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 1005058005815 protein binding site [polypeptide binding]; other site 1005058005816 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 1005058005817 protein binding site [polypeptide binding]; other site 1005058005818 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 1005058005819 putative substrate binding region [chemical binding]; other site 1005058005820 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1005058005821 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005058005822 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005058005823 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005058005824 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005058005825 Surface antigen; Region: Bac_surface_Ag; pfam01103 1005058005826 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1005058005827 periplasmic chaperone; Provisional; Region: PRK10780 1005058005828 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1005058005829 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1005058005830 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 1005058005831 trimer interface [polypeptide binding]; other site 1005058005832 active site 1005058005833 UDP-GlcNAc binding site [chemical binding]; other site 1005058005834 lipid binding site [chemical binding]; lipid-binding site 1005058005835 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 1005058005836 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1005058005837 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 1005058005838 active site 1005058005839 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1005058005840 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1005058005841 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1005058005842 RNA/DNA hybrid binding site [nucleotide binding]; other site 1005058005843 active site 1005058005844 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1005058005845 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 1005058005846 dimerization domain [polypeptide binding]; other site 1005058005847 dimer interface [polypeptide binding]; other site 1005058005848 catalytic residues [active] 1005058005849 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1005058005850 DHH family; Region: DHH; pfam01368 1005058005851 DHHA1 domain; Region: DHHA1; pfam02272 1005058005852 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 1005058005853 catalytic residues [active] 1005058005854 hinge region; other site 1005058005855 alpha helical domain; other site 1005058005856 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1005058005857 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1005058005858 Domain of unknown function (DUF305); Region: DUF305; cl17794 1005058005859 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1005058005860 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005058005861 catalytic residue [active] 1005058005862 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1005058005863 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1005058005864 putative catalytic residues [active] 1005058005865 putative nucleotide binding site [chemical binding]; other site 1005058005866 putative aspartate binding site [chemical binding]; other site 1005058005867 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1005058005868 dimer interface [polypeptide binding]; other site 1005058005869 putative threonine allosteric regulatory site; other site 1005058005870 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1005058005871 putative threonine allosteric regulatory site; other site 1005058005872 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1005058005873 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1005058005874 homoserine kinase; Region: thrB; TIGR00191 1005058005875 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1005058005876 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1005058005877 threonine synthase; Validated; Region: PRK09225 1005058005878 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1005058005879 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005058005880 catalytic residue [active] 1005058005881 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1005058005882 DNA methylase; Region: N6_N4_Mtase; pfam01555 1005058005883 ICEA Protein; Region: ICEA; pfam05315 1005058005884 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1005058005885 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 1005058005886 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1005058005887 active site 1005058005888 catalytic residues [active] 1005058005889 galactokinase; Provisional; Region: PRK05101 1005058005890 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1005058005891 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1005058005892 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1005058005893 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1005058005894 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1005058005895 dimer interface [polypeptide binding]; other site 1005058005896 active site 1005058005897 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1005058005898 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005058005899 DNA binding site [nucleotide binding] 1005058005900 domain linker motif; other site 1005058005901 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1005058005902 ligand binding site [chemical binding]; other site 1005058005903 dimerization interface (closed form) [polypeptide binding]; other site 1005058005904 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1005058005905 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1005058005906 ligand binding site [chemical binding]; other site 1005058005907 calcium binding site [ion binding]; other site 1005058005908 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005058005909 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1005058005910 Walker A/P-loop; other site 1005058005911 ATP binding site [chemical binding]; other site 1005058005912 Q-loop/lid; other site 1005058005913 ABC transporter signature motif; other site 1005058005914 Walker B; other site 1005058005915 D-loop; other site 1005058005916 H-loop/switch region; other site 1005058005917 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005058005918 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005058005919 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 1005058005920 TM-ABC transporter signature motif; other site 1005058005921 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1005058005922 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1005058005923 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 1005058005924 substrate binding pocket [chemical binding]; other site 1005058005925 membrane-bound complex binding site; other site 1005058005926 hinge residues; other site 1005058005927 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1005058005928 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1005058005929 Walker A/P-loop; other site 1005058005930 ATP binding site [chemical binding]; other site 1005058005931 Q-loop/lid; other site 1005058005932 ABC transporter signature motif; other site 1005058005933 Walker B; other site 1005058005934 D-loop; other site 1005058005935 H-loop/switch region; other site 1005058005936 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005058005937 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 1005058005938 dimer interface [polypeptide binding]; other site 1005058005939 conserved gate region; other site 1005058005940 putative PBP binding loops; other site 1005058005941 ABC-ATPase subunit interface; other site 1005058005942 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 1005058005943 dimer interface [polypeptide binding]; other site 1005058005944 conserved gate region; other site 1005058005945 putative PBP binding loops; other site 1005058005946 ABC-ATPase subunit interface; other site 1005058005947 glutamate dehydrogenase; Provisional; Region: PRK09414 1005058005948 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1005058005949 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1005058005950 NAD(P) binding site [chemical binding]; other site 1005058005951 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1005058005952 Pyruvate formate lyase 1; Region: PFL1; cd01678 1005058005953 coenzyme A binding site [chemical binding]; other site 1005058005954 active site 1005058005955 catalytic residues [active] 1005058005956 glycine loop; other site 1005058005957 formate transporter FocA; Region: formate_focA; TIGR04060 1005058005958 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 1005058005959 nucleotide binding site/active site [active] 1005058005960 HIT family signature motif; other site 1005058005961 catalytic residue [active] 1005058005962 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1005058005963 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1005058005964 transaldolase-like protein; Provisional; Region: PTZ00411 1005058005965 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1005058005966 active site 1005058005967 dimer interface [polypeptide binding]; other site 1005058005968 catalytic residue [active] 1005058005969 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 1005058005970 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1005058005971 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 1005058005972 calcium binding site 1 [ion binding]; other site 1005058005973 active site 1005058005974 catalytic triad [active] 1005058005975 calcium binding site 2 [ion binding]; other site 1005058005976 calcium binding site 3 [ion binding]; other site 1005058005977 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1005058005978 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1005058005979 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1005058005980 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1005058005981 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005058005982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058005983 Walker A/P-loop; other site 1005058005984 ATP binding site [chemical binding]; other site 1005058005985 Q-loop/lid; other site 1005058005986 ABC transporter signature motif; other site 1005058005987 Walker B; other site 1005058005988 D-loop; other site 1005058005989 H-loop/switch region; other site 1005058005990 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1005058005991 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005058005992 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1005058005993 OstA-like protein; Region: OstA; pfam03968 1005058005994 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1005058005995 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1005058005996 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 1005058005997 substrate binding site [chemical binding]; other site 1005058005998 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1005058005999 substrate binding site [chemical binding]; other site 1005058006000 ligand binding site [chemical binding]; other site 1005058006001 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1005058006002 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1005058006003 NADP binding site [chemical binding]; other site 1005058006004 homopentamer interface [polypeptide binding]; other site 1005058006005 substrate binding site [chemical binding]; other site 1005058006006 active site 1005058006007 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1005058006008 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1005058006009 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1005058006010 putative active site [active] 1005058006011 phosphodiesterase YaeI; Provisional; Region: PRK11340 1005058006012 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1005058006013 putative active site [active] 1005058006014 putative metal binding site [ion binding]; other site 1005058006015 Predicted flavoproteins [General function prediction only]; Region: COG2081 1005058006016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005058006017 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 1005058006018 sequence-specific DNA binding site [nucleotide binding]; other site 1005058006019 salt bridge; other site 1005058006020 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1005058006021 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1005058006022 Sulfatase; Region: Sulfatase; cl17466 1005058006023 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 1005058006024 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1005058006025 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1005058006026 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1005058006027 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1005058006028 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1005058006029 primosome assembly protein PriA; Validated; Region: PRK05580 1005058006030 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 1005058006031 ATP binding site [chemical binding]; other site 1005058006032 putative Mg++ binding site [ion binding]; other site 1005058006033 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1005058006034 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1005058006035 Sporulation related domain; Region: SPOR; pfam05036 1005058006036 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1005058006037 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1005058006038 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1005058006039 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1005058006040 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1005058006041 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1005058006042 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1005058006043 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058006044 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1005058006045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005058006046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005058006047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005058006048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005058006049 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 1005058006050 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005058006051 putative substrate translocation pore; other site 1005058006052 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1005058006053 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005058006054 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1005058006055 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 1005058006056 dimerization interface [polypeptide binding]; other site 1005058006057 putative DNA binding site [nucleotide binding]; other site 1005058006058 putative Zn2+ binding site [ion binding]; other site 1005058006059 homoserine dehydrogenase; Provisional; Region: PRK06349 1005058006060 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1005058006061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058006062 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058006063 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1005058006064 bacterial Hfq-like; Region: Hfq; cd01716 1005058006065 hexamer interface [polypeptide binding]; other site 1005058006066 Sm1 motif; other site 1005058006067 RNA binding site [nucleotide binding]; other site 1005058006068 Sm2 motif; other site 1005058006069 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1005058006070 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1005058006071 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 1005058006072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058006073 ATP binding site [chemical binding]; other site 1005058006074 Mg2+ binding site [ion binding]; other site 1005058006075 G-X-G motif; other site 1005058006076 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 1005058006077 ATP binding site [chemical binding]; other site 1005058006078 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1005058006079 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1005058006080 AMIN domain; Region: AMIN; pfam11741 1005058006081 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 1005058006082 active site 1005058006083 metal binding site [ion binding]; metal-binding site 1005058006084 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1005058006085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005058006086 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1005058006087 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005058006088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058006089 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 1005058006090 dimerization interface [polypeptide binding]; other site 1005058006091 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1005058006092 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 1005058006093 inhibitor-cofactor binding pocket; inhibition site 1005058006094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058006095 catalytic residue [active] 1005058006096 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1005058006097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1005058006098 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1005058006099 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1005058006100 tetrameric interface [polypeptide binding]; other site 1005058006101 NAD binding site [chemical binding]; other site 1005058006102 catalytic residues [active] 1005058006103 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1005058006104 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1005058006105 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1005058006106 ornithine cyclodeaminase; Validated; Region: PRK08618 1005058006107 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1005058006108 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 1005058006109 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1005058006110 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1005058006111 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1005058006112 active site 1005058006113 catalytic residues [active] 1005058006114 metal binding site [ion binding]; metal-binding site 1005058006115 homodimer binding site [polypeptide binding]; other site 1005058006116 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 1005058006117 carboxyltransferase (CT) interaction site; other site 1005058006118 biotinylation site [posttranslational modification]; other site 1005058006119 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1005058006120 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1005058006121 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1005058006122 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1005058006123 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1005058006124 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1005058006125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058006126 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058006127 Probable transposase; Region: OrfB_IS605; pfam01385 1005058006128 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058006129 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1005058006130 catalytic site [active] 1005058006131 putative active site [active] 1005058006132 putative substrate binding site [chemical binding]; other site 1005058006133 dimer interface [polypeptide binding]; other site 1005058006134 GTPase RsgA; Reviewed; Region: PRK12288 1005058006135 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1005058006136 RNA binding site [nucleotide binding]; other site 1005058006137 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1005058006138 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1005058006139 GTP/Mg2+ binding site [chemical binding]; other site 1005058006140 G4 box; other site 1005058006141 G5 box; other site 1005058006142 G1 box; other site 1005058006143 Switch I region; other site 1005058006144 G2 box; other site 1005058006145 G3 box; other site 1005058006146 Switch II region; other site 1005058006147 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 1005058006148 dimerization domain swap beta strand [polypeptide binding]; other site 1005058006149 regulatory protein interface [polypeptide binding]; other site 1005058006150 active site 1005058006151 regulatory phosphorylation site [posttranslational modification]; other site 1005058006152 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1005058006153 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1005058006154 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1005058006155 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1005058006156 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1005058006157 HPr interaction site; other site 1005058006158 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1005058006159 active site 1005058006160 phosphorylation site [posttranslational modification] 1005058006161 D-lactate dehydrogenase; Provisional; Region: PRK11183 1005058006162 FAD binding domain; Region: FAD_binding_4; pfam01565 1005058006163 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1005058006164 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1005058006165 ATP cone domain; Region: ATP-cone; pfam03477 1005058006166 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1005058006167 effector binding site; other site 1005058006168 active site 1005058006169 Zn binding site [ion binding]; other site 1005058006170 glycine loop; other site 1005058006171 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1005058006172 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 1005058006173 FeS/SAM binding site; other site 1005058006174 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1005058006175 Carbon starvation protein CstA; Region: CstA; pfam02554 1005058006176 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1005058006177 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1005058006178 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1005058006179 active site 1005058006180 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 1005058006181 poxB regulator PoxA; Provisional; Region: PRK09350 1005058006182 motif 1; other site 1005058006183 dimer interface [polypeptide binding]; other site 1005058006184 active site 1005058006185 motif 2; other site 1005058006186 motif 3; other site 1005058006187 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1005058006188 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1005058006189 putative dimer interface [polypeptide binding]; other site 1005058006190 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1005058006191 active site 1005058006192 ATP binding site [chemical binding]; other site 1005058006193 substrate binding site [chemical binding]; other site 1005058006194 beta-hexosaminidase; Provisional; Region: PRK05337 1005058006195 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1005058006196 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1005058006197 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 1005058006198 S-adenosylmethionine binding site [chemical binding]; other site 1005058006199 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1005058006200 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1005058006201 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1005058006202 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 1005058006203 MPT binding site; other site 1005058006204 trimer interface [polypeptide binding]; other site 1005058006205 ferric uptake regulator; Provisional; Region: fur; PRK09462 1005058006206 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1005058006207 metal binding site 2 [ion binding]; metal-binding site 1005058006208 putative DNA binding helix; other site 1005058006209 metal binding site 1 [ion binding]; metal-binding site 1005058006210 dimer interface [polypeptide binding]; other site 1005058006211 structural Zn2+ binding site [ion binding]; other site 1005058006212 flavodoxin FldA; Validated; Region: PRK09267 1005058006213 LexA regulated protein; Provisional; Region: PRK11675 1005058006214 acyl-CoA esterase; Provisional; Region: PRK10673 1005058006215 PGAP1-like protein; Region: PGAP1; pfam07819 1005058006216 replication initiation regulator SeqA; Provisional; Region: PRK11187 1005058006217 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1005058006218 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1005058006219 acyl-activating enzyme (AAE) consensus motif; other site 1005058006220 putative AMP binding site [chemical binding]; other site 1005058006221 putative active site [active] 1005058006222 putative CoA binding site [chemical binding]; other site 1005058006223 hypothetical protein; Provisional; Region: PRK11281 1005058006224 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1005058006225 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005058006226 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1005058006227 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1005058006228 Tetramer interface [polypeptide binding]; other site 1005058006229 active site 1005058006230 FMN-binding site [chemical binding]; other site 1005058006231 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1005058006232 hypothetical protein; Provisional; Region: PRK10621 1005058006233 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1005058006234 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1005058006235 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1005058006236 putative acyl-acceptor binding pocket; other site 1005058006237 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058006238 active site 1005058006239 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1005058006240 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 1005058006241 Walker A motif; other site 1005058006242 ATP binding site [chemical binding]; other site 1005058006243 Walker B motif; other site 1005058006244 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1005058006245 arginine finger; other site 1005058006246 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1005058006247 hypothetical protein; Validated; Region: PRK00153 1005058006248 recombination protein RecR; Reviewed; Region: recR; PRK00076 1005058006249 RecR protein; Region: RecR; pfam02132 1005058006250 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 1005058006251 putative active site [active] 1005058006252 putative metal-binding site [ion binding]; other site 1005058006253 tetramer interface [polypeptide binding]; other site 1005058006254 DNA polymerase III subunit chi; Validated; Region: PRK05728 1005058006255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005058006256 Coenzyme A binding pocket [chemical binding]; other site 1005058006257 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1005058006258 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058006259 active site 1005058006260 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1005058006261 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1005058006262 HIGH motif; other site 1005058006263 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1005058006264 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1005058006265 active site 1005058006266 KMSKS motif; other site 1005058006267 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1005058006268 tRNA binding surface [nucleotide binding]; other site 1005058006269 anticodon binding site; other site 1005058006270 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1005058006271 Sulfatase; Region: Sulfatase; cl17466 1005058006272 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1005058006273 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1005058006274 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1005058006275 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 1005058006276 RNA binding surface [nucleotide binding]; other site 1005058006277 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1005058006278 active site 1005058006279 Outer membrane lipoprotein; Region: YfiO; pfam13525 1005058006280 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1005058006281 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1005058006282 peptide binding site [polypeptide binding]; other site 1005058006283 hypothetical protein; Provisional; Region: PRK11111 1005058006284 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 1005058006285 homotrimer interaction site [polypeptide binding]; other site 1005058006286 putative active site [active] 1005058006287 YwiC-like protein; Region: YwiC; pfam14256 1005058006288 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1005058006289 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058006290 ATP binding site [chemical binding]; other site 1005058006291 Mg2+ binding site [ion binding]; other site 1005058006292 G-X-G motif; other site 1005058006293 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 1005058006294 anchoring element; other site 1005058006295 dimer interface [polypeptide binding]; other site 1005058006296 ATP binding site [chemical binding]; other site 1005058006297 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 1005058006298 active site 1005058006299 metal binding site [ion binding]; metal-binding site 1005058006300 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1005058006301 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1005058006302 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 1005058006303 CAP-like domain; other site 1005058006304 active site 1005058006305 primary dimer interface [polypeptide binding]; other site 1005058006306 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058006307 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 1005058006308 16S/18S rRNA binding site [nucleotide binding]; other site 1005058006309 S13e-L30e interaction site [polypeptide binding]; other site 1005058006310 25S rRNA binding site [nucleotide binding]; other site 1005058006311 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1005058006312 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1005058006313 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1005058006314 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1005058006315 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 1005058006316 D-pathway; other site 1005058006317 Putative ubiquinol binding site [chemical binding]; other site 1005058006318 Low-spin heme (heme b) binding site [chemical binding]; other site 1005058006319 Putative water exit pathway; other site 1005058006320 Binuclear center (heme o3/CuB) [ion binding]; other site 1005058006321 K-pathway; other site 1005058006322 Putative proton exit pathway; other site 1005058006323 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 1005058006324 Subunit I/III interface [polypeptide binding]; other site 1005058006325 Subunit III/IV interface [polypeptide binding]; other site 1005058006326 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 1005058006327 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1005058006328 UbiA prenyltransferase family; Region: UbiA; pfam01040 1005058006329 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 1005058006330 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005058006331 putative substrate translocation pore; other site 1005058006332 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1005058006333 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1005058006334 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1005058006335 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1005058006336 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 1005058006337 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 1005058006338 active site 1005058006339 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1005058006340 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005058006341 colicin uptake protein TolR; Provisional; Region: PRK11024 1005058006342 TolA C-terminal; Region: TolA; pfam06519 1005058006343 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1005058006344 translocation protein TolB; Provisional; Region: tolB; PRK01742 1005058006345 TolB amino-terminal domain; Region: TolB_N; pfam04052 1005058006346 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1005058006347 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1005058006348 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005058006349 ligand binding site [chemical binding]; other site 1005058006350 hypothetical protein; Provisional; Region: PRK11018 1005058006351 CPxP motif; other site 1005058006352 putative inner membrane protein; Provisional; Region: PRK11099 1005058006353 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1005058006354 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005058006355 putative metal binding site [ion binding]; other site 1005058006356 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1005058006357 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1005058006358 tRNA; other site 1005058006359 putative tRNA binding site [nucleotide binding]; other site 1005058006360 putative NADP binding site [chemical binding]; other site 1005058006361 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1005058006362 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1005058006363 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 1005058006364 hinge; other site 1005058006365 active site 1005058006366 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1005058006367 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 1005058006368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058006369 homodimer interface [polypeptide binding]; other site 1005058006370 catalytic residue [active] 1005058006371 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1005058006372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005058006373 catalytic residue [active] 1005058006374 hypothetical protein; Provisional; Region: PRK05423 1005058006375 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1005058006376 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 1005058006377 23S rRNA interface [nucleotide binding]; other site 1005058006378 L3 interface [polypeptide binding]; other site 1005058006379 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 1005058006380 ArsC family; Region: ArsC; pfam03960 1005058006381 catalytic residues [active] 1005058006382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1005058006383 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1005058006384 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1005058006385 MerT mercuric transport protein; Region: MerT; cl03578 1005058006386 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 1005058006387 metal-binding site [ion binding] 1005058006388 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1005058006389 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 1005058006390 ATP binding site [chemical binding]; other site 1005058006391 substrate interface [chemical binding]; other site 1005058006392 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1005058006393 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 1005058006394 dimer interface [polypeptide binding]; other site 1005058006395 putative functional site; other site 1005058006396 putative MPT binding site; other site 1005058006397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058006398 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058006399 Probable transposase; Region: OrfB_IS605; pfam01385 1005058006400 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1005058006401 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 1005058006402 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1005058006403 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1005058006404 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1005058006405 ligand binding site [chemical binding]; other site 1005058006406 active site 1005058006407 UGI interface [polypeptide binding]; other site 1005058006408 catalytic site [active] 1005058006409 hypothetical protein; Validated; Region: PRK02101 1005058006410 Cation efflux family; Region: Cation_efflux; cl00316 1005058006411 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1005058006412 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1005058006413 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1005058006414 active site 1005058006415 ADP/pyrophosphate binding site [chemical binding]; other site 1005058006416 dimerization interface [polypeptide binding]; other site 1005058006417 allosteric effector site; other site 1005058006418 fructose-1,6-bisphosphate binding site; other site 1005058006419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005058006420 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 1005058006421 dimer interface [polypeptide binding]; other site 1005058006422 phosphorylation site [posttranslational modification] 1005058006423 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1005058006424 ATP binding site [chemical binding]; other site 1005058006425 Mg2+ binding site [ion binding]; other site 1005058006426 G-X-G motif; other site 1005058006427 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005058006428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058006429 active site 1005058006430 phosphorylation site [posttranslational modification] 1005058006431 intermolecular recognition site; other site 1005058006432 dimerization interface [polypeptide binding]; other site 1005058006433 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 1005058006434 DNA binding site [nucleotide binding] 1005058006435 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1005058006436 Sulfatase; Region: Sulfatase; cl17466 1005058006437 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 1005058006438 active site 1005058006439 dimer interface [polypeptide binding]; other site 1005058006440 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058006441 active site 1005058006442 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1005058006443 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1005058006444 metal binding site [ion binding]; metal-binding site 1005058006445 dimer interface [polypeptide binding]; other site 1005058006446 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1005058006447 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 1005058006448 S-adenosylmethionine binding site [chemical binding]; other site 1005058006449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1005058006450 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1005058006451 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1005058006452 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1005058006453 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1005058006454 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1005058006455 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1005058006456 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 1005058006457 dimer interface [polypeptide binding]; other site 1005058006458 allosteric magnesium binding site [ion binding]; other site 1005058006459 active site 1005058006460 aspartate-rich active site metal binding site; other site 1005058006461 Schiff base residues; other site 1005058006462 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1005058006463 active site 1005058006464 Fe-S cluster binding site [ion binding]; other site 1005058006465 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 1005058006466 motif I; other site 1005058006467 active site 1005058006468 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1005058006469 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1005058006470 Walker A/P-loop; other site 1005058006471 ATP binding site [chemical binding]; other site 1005058006472 Q-loop/lid; other site 1005058006473 ABC transporter signature motif; other site 1005058006474 Walker B; other site 1005058006475 D-loop; other site 1005058006476 H-loop/switch region; other site 1005058006477 TOBE domain; Region: TOBE_2; pfam08402 1005058006478 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1005058006479 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 1005058006480 dimer interface [polypeptide binding]; other site 1005058006481 conserved gate region; other site 1005058006482 putative PBP binding loops; other site 1005058006483 ABC-ATPase subunit interface; other site 1005058006484 Sulfatase; Region: Sulfatase; cl17466 1005058006485 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 1005058006486 dimer interface [polypeptide binding]; other site 1005058006487 conserved gate region; other site 1005058006488 putative PBP binding loops; other site 1005058006489 ABC-ATPase subunit interface; other site 1005058006490 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1005058006491 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005058006492 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005058006493 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 1005058006494 phosphate binding site [ion binding]; other site 1005058006495 Predicted permease [General function prediction only]; Region: COG2056 1005058006496 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1005058006497 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1005058006498 ribonuclease T; Provisional; Region: PRK05168 1005058006499 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1005058006500 active site 1005058006501 catalytic site [active] 1005058006502 substrate binding site [chemical binding]; other site 1005058006503 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005058006504 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1005058006505 dimer interface [polypeptide binding]; other site 1005058006506 active site 1005058006507 metal binding site [ion binding]; metal-binding site 1005058006508 glutathione binding site [chemical binding]; other site 1005058006509 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1005058006510 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005058006511 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005058006512 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005058006513 superoxide dismutase; Provisional; Region: PRK10925 1005058006514 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1005058006515 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1005058006516 hypothetical protein; Provisional; Region: PRK05255 1005058006517 peptidase PmbA; Provisional; Region: PRK11040 1005058006518 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1005058006519 Sodium Bile acid symporter family; Region: SBF; pfam01758 1005058006520 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1005058006521 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1005058006522 pyridoxamine kinase; Validated; Region: PRK05756 1005058006523 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 1005058006524 dimer interface [polypeptide binding]; other site 1005058006525 pyridoxal binding site [chemical binding]; other site 1005058006526 ATP binding site [chemical binding]; other site 1005058006527 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1005058006528 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 1005058006529 Ligand Binding Site [chemical binding]; other site 1005058006530 TilS substrate binding domain; Region: TilS; pfam09179 1005058006531 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1005058006532 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1005058006533 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1005058006534 active site 1005058006535 catalytic site [active] 1005058006536 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1005058006537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058006538 Walker A/P-loop; other site 1005058006539 ATP binding site [chemical binding]; other site 1005058006540 Q-loop/lid; other site 1005058006541 ABC transporter signature motif; other site 1005058006542 Walker B; other site 1005058006543 D-loop; other site 1005058006544 H-loop/switch region; other site 1005058006545 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 1005058006546 dimer interface [polypeptide binding]; other site 1005058006547 conserved gate region; other site 1005058006548 putative PBP binding loops; other site 1005058006549 ABC-ATPase subunit interface; other site 1005058006550 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1005058006551 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 1005058006552 dimer interface [polypeptide binding]; other site 1005058006553 conserved gate region; other site 1005058006554 putative PBP binding loops; other site 1005058006555 ABC-ATPase subunit interface; other site 1005058006556 hypothetical protein; Provisional; Region: PRK11622 1005058006557 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005058006558 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1005058006559 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 1005058006560 catalytic core [active] 1005058006561 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1005058006562 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1005058006563 biotin synthase; Region: bioB; TIGR00433 1005058006564 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 1005058006565 FeS/SAM binding site; other site 1005058006566 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1005058006567 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1005058006568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058006569 Walker A/P-loop; other site 1005058006570 ATP binding site [chemical binding]; other site 1005058006571 Q-loop/lid; other site 1005058006572 ABC transporter signature motif; other site 1005058006573 Walker B; other site 1005058006574 D-loop; other site 1005058006575 H-loop/switch region; other site 1005058006576 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1005058006577 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 1005058006578 dimer interface [polypeptide binding]; other site 1005058006579 conserved gate region; other site 1005058006580 putative PBP binding loops; other site 1005058006581 ABC-ATPase subunit interface; other site 1005058006582 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 1005058006583 dimer interface [polypeptide binding]; other site 1005058006584 conserved gate region; other site 1005058006585 putative PBP binding loops; other site 1005058006586 ABC-ATPase subunit interface; other site 1005058006587 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005058006588 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1005058006589 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1005058006590 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1005058006591 oligomeric interface; other site 1005058006592 putative active site [active] 1005058006593 homodimer interface [polypeptide binding]; other site 1005058006594 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1005058006595 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1005058006596 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 1005058006597 S-adenosylmethionine binding site [chemical binding]; other site 1005058006598 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1005058006599 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1005058006600 active site 1005058006601 HIGH motif; other site 1005058006602 KMSKS motif; other site 1005058006603 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1005058006604 tRNA binding surface [nucleotide binding]; other site 1005058006605 anticodon binding site; other site 1005058006606 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 1005058006607 dimer interface [polypeptide binding]; other site 1005058006608 putative tRNA-binding site [nucleotide binding]; other site 1005058006609 antiporter inner membrane protein; Provisional; Region: PRK11670 1005058006610 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 1005058006611 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058006612 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058006613 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058006614 Fic family protein [Function unknown]; Region: COG3177 1005058006615 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1005058006616 Fic/DOC family; Region: Fic; pfam02661 1005058006617 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1005058006618 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1005058006619 O-Antigen ligase; Region: Wzy_C; pfam04932 1005058006620 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 1005058006621 rRNA binding site [nucleotide binding]; other site 1005058006622 predicted 30S ribosome binding site; other site 1005058006623 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1005058006624 primosomal protein DnaI; Provisional; Region: PRK02854 1005058006625 Fic/DOC family; Region: Fic; pfam02661 1005058006626 Protein of unknown function C-terminus (DUF2451); Region: DUF2451; pfam10474 1005058006627 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1005058006628 Chain length determinant protein; Region: Wzz; cl15801 1005058006629 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 1005058006630 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1005058006631 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1005058006632 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1005058006633 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 1005058006634 active site 1005058006635 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1005058006636 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1005058006637 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1005058006638 substrate binding site; other site 1005058006639 dimer interface; other site 1005058006640 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005058006641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005058006642 NAD(P) binding site [chemical binding]; other site 1005058006643 active site 1005058006644 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1005058006645 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005058006646 UDP-galactopyranose mutase; Region: GLF; pfam03275 1005058006647 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 1005058006648 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1005058006649 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1005058006650 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1005058006651 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1005058006652 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1005058006653 NAD binding site [chemical binding]; other site 1005058006654 substrate binding site [chemical binding]; other site 1005058006655 homodimer interface [polypeptide binding]; other site 1005058006656 active site 1005058006657 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 1005058006658 active site 1005058006659 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 1005058006660 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1005058006661 Fic family protein [Function unknown]; Region: COG3177 1005058006662 Fic/DOC family; Region: Fic; pfam02661 1005058006663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058006664 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058006665 Probable transposase; Region: OrfB_IS605; pfam01385 1005058006666 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058006667 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1005058006668 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1005058006669 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1005058006670 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1005058006671 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1005058006672 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1005058006673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005058006674 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1005058006675 acyl-activating enzyme (AAE) consensus motif; other site 1005058006676 putative AMP binding site [chemical binding]; other site 1005058006677 putative active site [active] 1005058006678 putative CoA binding site [chemical binding]; other site 1005058006679 ribonuclease D; Provisional; Region: PRK10829 1005058006680 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1005058006681 catalytic site [active] 1005058006682 putative active site [active] 1005058006683 putative substrate binding site [chemical binding]; other site 1005058006684 HRDC domain; Region: HRDC; pfam00570 1005058006685 serine/threonine transporter SstT; Provisional; Region: PRK13628 1005058006686 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1005058006687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1005058006688 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1005058006689 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1005058006690 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1005058006691 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1005058006692 substrate-cofactor binding pocket; other site 1005058006693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058006694 catalytic residue [active] 1005058006695 Protein of unknown function (DUF452); Region: DUF452; cl01062 1005058006696 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1005058006697 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1005058006698 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 1005058006699 S-adenosylmethionine binding site [chemical binding]; other site 1005058006700 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1005058006701 Sm and related proteins; Region: Sm_like; cl00259 1005058006702 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1005058006703 putative oligomer interface [polypeptide binding]; other site 1005058006704 putative RNA binding site [nucleotide binding]; other site 1005058006705 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1005058006706 NusA N-terminal domain; Region: NusA_N; pfam08529 1005058006707 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 1005058006708 RNA binding site [nucleotide binding]; other site 1005058006709 homodimer interface [polypeptide binding]; other site 1005058006710 NusA-like KH domain; Region: KH_5; pfam13184 1005058006711 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 1005058006712 G-X-X-G motif; other site 1005058006713 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1005058006714 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1005058006715 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1005058006716 translation initiation factor IF-2; Region: IF-2; TIGR00487 1005058006717 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1005058006718 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1005058006719 G1 box; other site 1005058006720 putative GEF interaction site [polypeptide binding]; other site 1005058006721 GTP/Mg2+ binding site [chemical binding]; other site 1005058006722 Switch I region; other site 1005058006723 G2 box; other site 1005058006724 G3 box; other site 1005058006725 Switch II region; other site 1005058006726 G4 box; other site 1005058006727 G5 box; other site 1005058006728 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 1005058006729 Translation-initiation factor 2; Region: IF-2; pfam11987 1005058006730 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 1005058006731 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1005058006732 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1005058006733 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1005058006734 RNA binding site [nucleotide binding]; other site 1005058006735 active site 1005058006736 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1005058006737 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005058006738 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 1005058006739 eyelet of channel; other site 1005058006740 trimer interface [polypeptide binding]; other site 1005058006741 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005058006742 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 1005058006743 trimer interface [polypeptide binding]; other site 1005058006744 eyelet of channel; other site 1005058006745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1005058006746 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1005058006747 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1005058006748 PemK-like protein; Region: PemK; cl00995 1005058006749 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1005058006750 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1005058006751 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 1005058006752 nucleotide binding pocket [chemical binding]; other site 1005058006753 K-X-D-G motif; other site 1005058006754 catalytic site [active] 1005058006755 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1005058006756 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1005058006757 Helix-hairpin-helix motif; Region: HHH; pfam00633 1005058006758 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 1005058006759 Dimer interface [polypeptide binding]; other site 1005058006760 BRCT sequence motif; other site 1005058006761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1005058006762 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1005058006763 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1005058006764 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 1005058006765 motif II; other site 1005058006766 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1005058006767 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1005058006768 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1005058006769 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1005058006770 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1005058006771 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1005058006772 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 1005058006773 interface (dimer of trimers) [polypeptide binding]; other site 1005058006774 Substrate-binding/catalytic site; other site 1005058006775 Zn-binding sites [ion binding]; other site 1005058006776 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1005058006777 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1005058006778 SelR domain; Region: SelR; pfam01641 1005058006779 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1005058006780 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1005058006781 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 1005058006782 FeS/SAM binding site; other site 1005058006783 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1005058006784 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 1005058006785 dimer interface [polypeptide binding]; other site 1005058006786 TPP-binding site [chemical binding]; other site 1005058006787 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1005058006788 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 1005058006789 E3 interaction surface; other site 1005058006790 lipoyl attachment site [posttranslational modification]; other site 1005058006791 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 1005058006792 E3 interaction surface; other site 1005058006793 lipoyl attachment site [posttranslational modification]; other site 1005058006794 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 1005058006795 E3 interaction surface; other site 1005058006796 lipoyl attachment site [posttranslational modification]; other site 1005058006797 e3 binding domain; Region: E3_binding; pfam02817 1005058006798 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1005058006799 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1005058006800 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005058006801 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005058006802 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1005058006803 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1005058006804 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1005058006805 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 1005058006806 Walker A motif; other site 1005058006807 ATP binding site [chemical binding]; other site 1005058006808 Walker B motif; other site 1005058006809 arginine finger; other site 1005058006810 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1005058006811 periplasmic folding chaperone; Provisional; Region: PRK10788 1005058006812 SurA N-terminal domain; Region: SurA_N_3; cl07813 1005058006813 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1005058006814 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 1005058006815 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 1005058006816 inhibitor-cofactor binding pocket; inhibition site 1005058006817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058006818 catalytic residue [active] 1005058006819 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1005058006820 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 1005058006821 ATP binding site [chemical binding]; other site 1005058006822 putative Mg++ binding site [ion binding]; other site 1005058006823 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 1005058006824 nucleotide binding region [chemical binding]; other site 1005058006825 ATP-binding site [chemical binding]; other site 1005058006826 Helicase associated domain (HA2); Region: HA2; pfam04408 1005058006827 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1005058006828 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1005058006829 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1005058006830 ATP cone domain; Region: ATP-cone; pfam03477 1005058006831 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1005058006832 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 1005058006833 catalytic motif [active] 1005058006834 Zn binding site [ion binding]; other site 1005058006835 RibD C-terminal domain; Region: RibD_C; cl17279 1005058006836 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1005058006837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005058006838 Coenzyme A binding pocket [chemical binding]; other site 1005058006839 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 1005058006840 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1005058006841 homodecamer interface [polypeptide binding]; other site 1005058006842 GTP cyclohydrolase I; Provisional; Region: PLN03044 1005058006843 active site 1005058006844 putative catalytic site residues [active] 1005058006845 zinc binding site [ion binding]; other site 1005058006846 GTP-CH-I/GFRP interaction surface; other site 1005058006847 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1005058006848 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 1005058006849 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1005058006850 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 1005058006851 active site 1005058006852 dimer interface [polypeptide binding]; other site 1005058006853 motif 1; other site 1005058006854 motif 2; other site 1005058006855 motif 3; other site 1005058006856 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 1005058006857 anticodon binding site; other site 1005058006858 Transposase domain (DUF772); Region: DUF772; pfam05598 1005058006859 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005058006860 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005058006861 Fe-S metabolism associated domain; Region: SufE; cl00951 1005058006862 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1005058006863 Aminotransferase class-V; Region: Aminotran_5; pfam00266 1005058006864 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005058006865 catalytic residue [active] 1005058006866 Staphylococcal nuclease homologues; Region: SNc; smart00318 1005058006867 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1005058006868 Catalytic site; other site 1005058006869 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1005058006870 LrgA family; Region: LrgA; cl00608 1005058006871 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1005058006872 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1005058006873 DctM-like transporters; Region: DctM; pfam06808 1005058006874 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1005058006875 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1005058006876 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1005058006877 aspartate kinase III; Validated; Region: PRK09084 1005058006878 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1005058006879 nucleotide binding site [chemical binding]; other site 1005058006880 substrate binding site [chemical binding]; other site 1005058006881 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1005058006882 lysine allosteric regulatory site; other site 1005058006883 dimer interface [polypeptide binding]; other site 1005058006884 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1005058006885 dimer interface [polypeptide binding]; other site 1005058006886 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1005058006887 AAA domain; Region: AAA_26; pfam13500 1005058006888 OmpW family; Region: OmpW; cl17427 1005058006889 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1005058006890 transcriptional regulator NarP; Provisional; Region: PRK10403 1005058006891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1005058006892 active site 1005058006893 phosphorylation site [posttranslational modification] 1005058006894 intermolecular recognition site; other site 1005058006895 dimerization interface [polypeptide binding]; other site 1005058006896 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 1005058006897 DNA binding residues [nucleotide binding] 1005058006898 dimerization interface [polypeptide binding]; other site 1005058006899 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1005058006900 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1005058006901 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1005058006902 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1005058006903 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 1005058006904 domain interfaces; other site 1005058006905 active site 1005058006906 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1005058006907 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 1005058006908 active site 1005058006909 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1005058006910 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1005058006911 HemY protein N-terminus; Region: HemY_N; pfam07219 1005058006912 potential frameshift: common BLAST hit: gi|33599902|ref|NP_887462.1| type III restriction enzyme 1005058006913 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1005058006914 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1005058006915 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1005058006916 aromatic amino acid transport protein; Region: araaP; TIGR00837 1005058006917 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1005058006918 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1005058006919 RF-1 domain; Region: RF-1; pfam00472 1005058006920 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1005058006921 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 1005058006922 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1005058006923 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1005058006924 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1005058006925 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1005058006926 glycerate dehydrogenase; Provisional; Region: PRK06932 1005058006927 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1005058006928 putative ligand binding site [chemical binding]; other site 1005058006929 putative NAD binding site [chemical binding]; other site 1005058006930 catalytic site [active] 1005058006931 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1005058006932 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1005058006933 FtsX-like permease family; Region: FtsX; pfam02687 1005058006934 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1005058006935 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005058006936 Walker A/P-loop; other site 1005058006937 ATP binding site [chemical binding]; other site 1005058006938 Q-loop/lid; other site 1005058006939 ABC transporter signature motif; other site 1005058006940 Walker B; other site 1005058006941 D-loop; other site 1005058006942 H-loop/switch region; other site 1005058006943 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1005058006944 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1005058006945 FtsX-like permease family; Region: FtsX; pfam02687 1005058006946 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1005058006947 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1005058006948 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1005058006949 Glycoprotease family; Region: Peptidase_M22; pfam00814 1005058006950 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1005058006951 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 1005058006952 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1005058006953 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1005058006954 active site 1005058006955 phosphate binding residues; other site 1005058006956 catalytic residues [active] 1005058006957 dsDNA-mimic protein; Reviewed; Region: PRK05094 1005058006958 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1005058006959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005058006960 Coenzyme A binding pocket [chemical binding]; other site 1005058006961 Predicted transcriptional regulators [Transcription]; Region: COG1695 1005058006962 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1005058006963 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1005058006964 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1005058006965 hypothetical protein; Provisional; Region: PRK05170 1005058006966 Cytotoxic; Region: Cytotoxic; pfam09000 1005058006967 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005058006968 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1005058006969 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1005058006970 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1005058006971 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058006972 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058006973 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1005058006974 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1005058006975 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1005058006976 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1005058006977 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1005058006978 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 1005058006979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005058006980 homodimer interface [polypeptide binding]; other site 1005058006981 catalytic residue [active] 1005058006982 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1005058006983 ATP-grasp domain; Region: ATP-grasp; pfam02222 1005058006984 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1005058006985 aminopeptidase N; Provisional; Region: pepN; PRK14015 1005058006986 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1005058006987 active site 1005058006988 Zn binding site [ion binding]; other site 1005058006989 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1005058006990 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 1005058006991 quinone interaction residues [chemical binding]; other site 1005058006992 active site 1005058006993 catalytic residues [active] 1005058006994 FMN binding site [chemical binding]; other site 1005058006995 substrate binding site [chemical binding]; other site 1005058006996 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1005058006997 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1005058006998 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1005058006999 active site 1005058007000 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1005058007001 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1005058007002 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1005058007003 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 1005058007004 RNA binding surface [nucleotide binding]; other site 1005058007005 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1005058007006 probable active site [active] 1005058007007 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1005058007008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005058007009 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1005058007010 substrate binding site [chemical binding]; other site 1005058007011 dimerization interface [polypeptide binding]; other site 1005058007012 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1005058007013 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1005058007014 putative active site cavity [active] 1005058007015 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1005058007016 ROK family; Region: ROK; pfam00480 1005058007017 nucleotide binding site [chemical binding]; other site 1005058007018 Domain of unknown function (DUF386); Region: DUF386; pfam04074 1005058007019 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1005058007020 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005058007021 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 1005058007022 putative active site [active] 1005058007023 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1005058007024 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1005058007025 inhibitor site; inhibition site 1005058007026 active site 1005058007027 dimer interface [polypeptide binding]; other site 1005058007028 catalytic residue [active] 1005058007029 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1005058007030 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1005058007031 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1005058007032 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1005058007033 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1005058007034 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1005058007035 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 1005058007036 N-terminal plug; other site 1005058007037 ligand-binding site [chemical binding]; other site 1005058007038 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1005058007039 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1005058007040 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1005058007041 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1005058007042 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 1005058007043 Walker A motif; other site 1005058007044 ATP binding site [chemical binding]; other site 1005058007045 Walker B motif; other site 1005058007046 arginine finger; other site 1005058007047 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1005058007048 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1005058007049 RuvA N terminal domain; Region: RuvA_N; pfam01330 1005058007050 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1005058007051 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005058007052 EamA-like transporter family; Region: EamA; pfam00892 1005058007053 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1005058007054 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1005058007055 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 1005058007056 DNA binding site [nucleotide binding] 1005058007057 active site 1005058007058 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1005058007059 glutathione reductase; Validated; Region: PRK06116 1005058007060 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005058007061 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005058007062 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1005058007063 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 1005058007064 AMP binding site [chemical binding]; other site 1005058007065 metal binding site [ion binding]; metal-binding site 1005058007066 active site 1005058007067 cytidine deaminase; Provisional; Region: PRK09027 1005058007068 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1005058007069 active site 1005058007070 catalytic motif [active] 1005058007071 Zn binding site [ion binding]; other site 1005058007072 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1005058007073 active site 1005058007074 catalytic motif [active] 1005058007075 Zn binding site [ion binding]; other site 1005058007076 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1005058007077 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1005058007078 active site 1005058007079 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1005058007080 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1005058007081 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 1005058007082 dimer interface [polypeptide binding]; other site 1005058007083 motif 1; other site 1005058007084 active site 1005058007085 motif 2; other site 1005058007086 motif 3; other site 1005058007087 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1005058007088 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 1005058007089 putative tRNA-binding site [nucleotide binding]; other site 1005058007090 B3/4 domain; Region: B3_4; pfam03483 1005058007091 tRNA synthetase B5 domain; Region: B5; smart00874 1005058007092 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 1005058007093 dimer interface [polypeptide binding]; other site 1005058007094 motif 1; other site 1005058007095 motif 3; other site 1005058007096 motif 2; other site 1005058007097 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1005058007098 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 1005058007099 IHF dimer interface [polypeptide binding]; other site 1005058007100 IHF - DNA interface [nucleotide binding]; other site 1005058007101 NlpC/P60 family; Region: NLPC_P60; pfam00877 1005058007102 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1005058007103 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1005058007104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005058007105 active site 1005058007106 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1005058007107 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1005058007108 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1005058007109 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1005058007110 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1005058007111 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 1005058007112 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cd09647 1005058007113 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 1005058007114 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 1005058007115 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 1005058007116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058007117 Transposase; Region: HTH_Tnp_1; pfam01527 1005058007118 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1005058007119 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 1005058007120 CRISPR/Cas system-associated protein Csx16; Region: Csx16_III-U; cd09743 1005058007121 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 1005058007122 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 1005058007123 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 1005058007124 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1005058007125 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 1005058007126 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1005058007127 GrpE; Region: GrpE; pfam01025 1005058007128 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 1005058007129 dimer interface [polypeptide binding]; other site 1005058007130 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1005058007131 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1005058007132 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1005058007133 recombination and repair protein; Provisional; Region: PRK10869 1005058007134 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1005058007135 Walker A/P-loop; other site 1005058007136 ATP binding site [chemical binding]; other site 1005058007137 Q-loop/lid; other site 1005058007138 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1005058007139 Q-loop/lid; other site 1005058007140 ABC transporter signature motif; other site 1005058007141 Walker B; other site 1005058007142 D-loop; other site 1005058007143 H-loop/switch region; other site 1005058007144 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1005058007145 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058007146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058007147 ABC transporter; Region: ABC_tran_2; pfam12848 1005058007148 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005058007149 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1005058007150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1005058007151 Putative esterase; Region: Esterase; pfam00756 1005058007152 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1005058007153 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 1005058007154 N-terminal plug; other site 1005058007155 ligand-binding site [chemical binding]; other site 1005058007156 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1005058007157 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005058007158 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1005058007159 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1005058007160 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1005058007161 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1005058007162 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1005058007163 homooctamer interface [polypeptide binding]; other site 1005058007164 active site 1005058007165 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005058007166 Coenzyme A binding pocket [chemical binding]; other site 1005058007167 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1005058007168 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1005058007169 putative active site [active] 1005058007170 catalytic site [active] 1005058007171 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1005058007172 putative active site [active] 1005058007173 catalytic site [active] 1005058007174 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1005058007175 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 1005058007176 putative substrate translocation pore; other site 1005058007177 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1005058007178 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1005058007179 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1005058007180 hypothetical protein; Provisional; Region: PRK05415 1005058007181 Domain of unknown function (DUF697); Region: DUF697; cl12064 1005058007182 YcjX-like family, DUF463; Region: DUF463; cl01193 1005058007183 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1005058007184 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1005058007185 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1005058007186 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1005058007187 peptide binding site [polypeptide binding]; other site 1005058007188 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 1005058007189 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 1005058007190 dimer interface [polypeptide binding]; other site 1005058007191 conserved gate region; other site 1005058007192 putative PBP binding loops; other site 1005058007193 ABC-ATPase subunit interface; other site 1005058007194 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1005058007195 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1005058007196 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 1005058007197 putative PBP binding loops; other site 1005058007198 dimer interface [polypeptide binding]; other site 1005058007199 ABC-ATPase subunit interface; other site 1005058007200 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1005058007201 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005058007202 Walker A/P-loop; other site 1005058007203 ATP binding site [chemical binding]; other site 1005058007204 Q-loop/lid; other site 1005058007205 ABC transporter signature motif; other site 1005058007206 Walker B; other site 1005058007207 D-loop; other site 1005058007208 H-loop/switch region; other site 1005058007209 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005058007210 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1005058007211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005058007212 Walker A/P-loop; other site 1005058007213 ATP binding site [chemical binding]; other site 1005058007214 Q-loop/lid; other site 1005058007215 ABC transporter signature motif; other site 1005058007216 Walker B; other site 1005058007217 D-loop; other site 1005058007218 H-loop/switch region; other site 1005058007219 mechanosensitive channel MscS; Provisional; Region: PRK10334 1005058007220 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005058007221 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 1005058007222 active site 1 [active] 1005058007223 dimer interface [polypeptide binding]; other site 1005058007224 active site 2 [active] 1005058007225 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1005058007226 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1005058007227 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1005058007228 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 1005058007229 thioredoxin reductase; Provisional; Region: PRK10262 1005058007230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005058007231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005058007232 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1005058007233 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005058007234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058007235 Walker A/P-loop; other site 1005058007236 ATP binding site [chemical binding]; other site 1005058007237 Q-loop/lid; other site 1005058007238 ABC transporter signature motif; other site 1005058007239 Walker B; other site 1005058007240 D-loop; other site 1005058007241 H-loop/switch region; other site 1005058007242 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1005058007243 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005058007244 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058007245 Walker A/P-loop; other site 1005058007246 ATP binding site [chemical binding]; other site 1005058007247 Q-loop/lid; other site 1005058007248 ABC transporter signature motif; other site 1005058007249 Walker B; other site 1005058007250 D-loop; other site 1005058007251 H-loop/switch region; other site 1005058007252 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 1005058007253 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 1005058007254 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 1005058007255 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 1005058007256 CRISPR-associated protein (Cas_Csy2); Region: Cas_Csy2; pfam09614 1005058007257 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 1005058007258 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1005058007259 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1005058007260 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1005058007261 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1005058007262 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1005058007263 MOSC domain; Region: MOSC; pfam03473 1005058007264 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 1005058007265 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005058007266 putative substrate translocation pore; other site 1005058007267 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1005058007268 HTH-like domain; Region: HTH_21; pfam13276 1005058007269 Integrase core domain; Region: rve; pfam00665 1005058007270 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058007271 Integrase core domain; Region: rve_3; pfam13683 1005058007272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058007273 Transposase; Region: HTH_Tnp_1; pfam01527 1005058007274 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 1005058007275 Uncharacterized conserved protein [Function unknown]; Region: COG3422 1005058007276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058007277 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058007278 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058007279 Integrase core domain; Region: rve; pfam00665 1005058007280 Integrase core domain; Region: rve_2; pfam13333 1005058007281 Beta protein; Region: Beta_protein; pfam14350 1005058007282 Predicted transcriptional regulator [Transcription]; Region: COG2932 1005058007283 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 1005058007284 Catalytic site [active] 1005058007285 Cro; Region: Cro; pfam09048 1005058007286 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1005058007287 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1005058007288 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1005058007289 Replication protein P; Region: Phage_lambda_P; pfam06992 1005058007290 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1005058007291 NinB protein; Region: NinB; pfam05772 1005058007292 Prophage antirepressor [Transcription]; Region: COG3617 1005058007293 BRO family, N-terminal domain; Region: Bro-N; smart01040 1005058007294 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1005058007295 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1005058007296 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 1005058007297 non-specific DNA binding site [nucleotide binding]; other site 1005058007298 salt bridge; other site 1005058007299 sequence-specific DNA binding site [nucleotide binding]; other site 1005058007300 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1005058007301 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1005058007302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058007303 Transposase; Region: HTH_Tnp_1; pfam01527 1005058007304 HTH-like domain; Region: HTH_21; pfam13276 1005058007305 Integrase core domain; Region: rve; pfam00665 1005058007306 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1005058007307 Integrase core domain; Region: rve_3; pfam13683 1005058007308 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1005058007309 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1005058007310 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 1005058007311 sequence-specific DNA binding site [nucleotide binding]; other site 1005058007312 salt bridge; other site 1005058007313 Integrase core domain; Region: rve; pfam00665 1005058007314 Integrase core domain; Region: rve_3; pfam13683 1005058007315 Integrase core domain; Region: rve; pfam00665 1005058007316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058007317 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058007318 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058007319 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1005058007320 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1005058007321 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1005058007322 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 1005058007323 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1005058007324 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1005058007325 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1005058007326 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1005058007327 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1005058007328 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1005058007329 oligomer interface [polypeptide binding]; other site 1005058007330 active site residues [active] 1005058007331 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1005058007332 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1005058007333 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 1005058007334 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1005058007335 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1005058007336 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1005058007337 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1005058007338 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1005058007339 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 1005058007340 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1005058007341 Phage-related protein [Function unknown]; Region: gp18; COG4672 1005058007342 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1005058007343 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 1005058007344 non-specific DNA binding site [nucleotide binding]; other site 1005058007345 salt bridge; other site 1005058007346 sequence-specific DNA binding site [nucleotide binding]; other site 1005058007347 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1005058007348 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1005058007349 MPN+ (JAMM) motif; other site 1005058007350 Zinc-binding site [ion binding]; other site 1005058007351 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1005058007352 NlpC/P60 family; Region: NLPC_P60; pfam00877 1005058007353 Phage-related protein, tail component [Function unknown]; Region: COG4723 1005058007354 Phage-related protein, tail component [Function unknown]; Region: COG4733 1005058007355 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1005058007356 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1005058007357 GMP synthase; Reviewed; Region: guaA; PRK00074 1005058007358 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1005058007359 AMP/PPi binding site [chemical binding]; other site 1005058007360 candidate oxyanion hole; other site 1005058007361 catalytic triad [active] 1005058007362 potential glutamine specificity residues [chemical binding]; other site 1005058007363 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 1005058007364 ATP Binding subdomain [chemical binding]; other site 1005058007365 Ligand Binding sites [chemical binding]; other site 1005058007366 Dimerization subdomain; other site 1005058007367 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1005058007368 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 1005058007369 active site 1005058007370 motif I; other site 1005058007371 motif II; other site 1005058007372 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1005058007373 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 1005058007374 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 1005058007375 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 1005058007376 active site 1005058007377 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1005058007378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1005058007379 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1005058007380 Probable transposase; Region: OrfB_IS605; pfam01385 1005058007381 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1005058007382 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 1005058007383 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 1005058007384 DNA binding site [nucleotide binding] 1005058007385 Int/Topo IB signature motif; other site 1005058007386 active site 1005058007387 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1005058007388 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1005058007389 heme-binding site [chemical binding]; other site 1005058007390 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1005058007391 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 1005058007392 ABC-ATPase subunit interface; other site 1005058007393 dimer interface [polypeptide binding]; other site 1005058007394 putative PBP binding regions; other site 1005058007395 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1005058007396 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1005058007397 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 1005058007398 putative peptidase; Provisional; Region: PRK11649 1005058007399 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005058007400 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1005058007401 Transglycosylase; Region: Transgly; pfam00912 1005058007402 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1005058007403 putative transporter; Provisional; Region: PRK11660 1005058007404 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1005058007405 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1005058007406 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 1005058007407 YadA-like C-terminal region; Region: YadA; pfam03895 1005058007408 Integrase core domain; Region: rve_2; pfam13333 1005058007409 Integrase core domain; Region: rve; pfam00665 1005058007410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1005058007411 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058007412 Helix-turn-helix domain; Region: HTH_28; pfam13518 1005058007413 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1005058007414 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1005058007415 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1005058007416 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1005058007417 dimerization interface 3.5A [polypeptide binding]; other site 1005058007418 active site 1005058007419 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1005058007420 5S rRNA interface [nucleotide binding]; other site 1005058007421 CTC domain interface [polypeptide binding]; other site 1005058007422 L16 interface [polypeptide binding]; other site 1005058007423 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1005058007424 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1005058007425 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005058007426 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1005058007427 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1005058007428 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1005058007429 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058007430 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005058007431 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1005058007432 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1005058007433 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1005058007434 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1005058007435 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 1005058007436 substrate binding site [chemical binding]; other site 1005058007437 THF binding site; other site 1005058007438 zinc-binding site [ion binding]; other site 1005058007439 DNA gyrase subunit A; Validated; Region: PRK05560 1005058007440 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 1005058007441 CAP-like domain; other site 1005058007442 active site 1005058007443 primary dimer interface [polypeptide binding]; other site 1005058007444 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058007445 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058007446 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058007447 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058007448 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058007449 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005058007450 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1005058007451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058007452 Walker A/P-loop; other site 1005058007453 ATP binding site [chemical binding]; other site 1005058007454 Q-loop/lid; other site 1005058007455 ABC transporter signature motif; other site 1005058007456 Walker B; other site 1005058007457 D-loop; other site 1005058007458 H-loop/switch region; other site 1005058007459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005058007460 Walker A/P-loop; other site 1005058007461 ATP binding site [chemical binding]; other site 1005058007462 Q-loop/lid; other site 1005058007463 ABC transporter signature motif; other site 1005058007464 Walker B; other site 1005058007465 D-loop; other site 1005058007466 H-loop/switch region; other site 1005058007467 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 1005058007468 Catalytic site [active] 1005058007469 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1005058007470 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 1005058007471 Ligand Binding Site [chemical binding]; other site 1005058007472 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1005058007473 malonic semialdehyde reductase; Provisional; Region: PRK10538 1005058007474 putative NAD(P) binding site [chemical binding]; other site 1005058007475 homodimer interface [polypeptide binding]; other site 1005058007476 homotetramer interface [polypeptide binding]; other site 1005058007477 active site 1005058007478 condesin subunit F; Provisional; Region: PRK05260 1005058007479 condesin subunit E; Provisional; Region: PRK05256 1005058007480 cell division protein MukB; Provisional; Region: mukB; PRK04863 1005058007481 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1005058007482 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1005058007483 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 1005058007484 metal binding site [ion binding]; metal-binding site 1005058007485 universal stress protein UspE; Provisional; Region: PRK11175 1005058007486 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 1005058007487 Ligand Binding Site [chemical binding]; other site 1005058007488 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 1005058007489 Ligand Binding Site [chemical binding]; other site 1005058007490 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1005058007491 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 1005058007492 ligand binding site [chemical binding]; other site 1005058007493 flexible hinge region; other site 1005058007494 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 1005058007495 putative switch regulator; other site 1005058007496 non-specific DNA interactions [nucleotide binding]; other site 1005058007497 DNA binding site [nucleotide binding] 1005058007498 sequence specific DNA binding site [nucleotide binding]; other site 1005058007499 putative cAMP binding site [chemical binding]; other site 1005058007500 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1005058007501 Ferritin-like domain; Region: Ferritin; pfam00210 1005058007502 ferroxidase diiron center [ion binding]; other site 1005058007503 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1005058007504 Ferritin-like domain; Region: Ferritin; pfam00210 1005058007505 ferroxidase diiron center [ion binding]; other site 1005058007506 dihydromonapterin reductase; Provisional; Region: PRK06483 1005058007507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005058007508 NAD(P) binding site [chemical binding]; other site 1005058007509 active site 1005058007510 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1005058007511 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1005058007512 active site 1005058007513 interdomain interaction site; other site 1005058007514 putative metal-binding site [ion binding]; other site 1005058007515 nucleotide binding site [chemical binding]; other site 1005058007516 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 1005058007517 domain I; other site 1005058007518 DNA binding groove [nucleotide binding] 1005058007519 phosphate binding site [ion binding]; other site 1005058007520 domain II; other site 1005058007521 domain III; other site 1005058007522 nucleotide binding site [chemical binding]; other site 1005058007523 catalytic site [active] 1005058007524 domain IV; other site 1005058007525 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1005058007526 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1005058007527 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1005058007528 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1005058007529 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1005058007530 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 1005058007531 FeS/SAM binding site; other site 1005058007532 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1005058007533 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 1005058007534 trimer interface [polypeptide binding]; other site 1005058007535 dimer interface [polypeptide binding]; other site 1005058007536 putative active site [active] 1005058007537 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1005058007538 MoaE interaction surface [polypeptide binding]; other site 1005058007539 MoeB interaction surface [polypeptide binding]; other site 1005058007540 thiocarboxylated glycine; other site 1005058007541 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 1005058007542 MoaE homodimer interface [polypeptide binding]; other site 1005058007543 MoaD interaction [polypeptide binding]; other site 1005058007544 active site residues [active] 1005058007545 Protein of unknown function, DUF412; Region: DUF412; cl01183 1005058007546 propionate/acetate kinase; Provisional; Region: PRK12379 1005058007547 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1005058007548 nucleotide binding site [chemical binding]; other site 1005058007549 butyrate kinase; Region: butyr_kinase; TIGR02707 1005058007550 phosphate acetyltransferase; Reviewed; Region: PRK05632 1005058007551 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1005058007552 DRTGG domain; Region: DRTGG; pfam07085 1005058007553 phosphate acetyltransferase; Region: pta; TIGR00651 1005058007554 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1005058007555 dimer interface [polypeptide binding]; other site 1005058007556 putative radical transfer pathway; other site 1005058007557 diiron center [ion binding]; other site 1005058007558 tyrosyl radical; other site 1005058007559 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1005058007560 ATP cone domain; Region: ATP-cone; pfam03477 1005058007561 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1005058007562 active site 1005058007563 dimer interface [polypeptide binding]; other site 1005058007564 catalytic residues [active] 1005058007565 effector binding site; other site 1005058007566 R2 peptide binding site; other site 1005058007567 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1005058007568 Phage portal protein; Region: Phage_portal; pfam04860 1005058007569 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1005058007570 terminase ATPase subunit; Provisional; Region: P; PHA02535 1005058007571 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1005058007572 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1005058007573 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1005058007574 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1005058007575 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1005058007576 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1005058007577 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1005058007578 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1005058007579 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 1005058007580 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 1005058007581 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1005058007582 catalytic residues [active] 1005058007583 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 1005058007584 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1005058007585 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 1005058007586 Baseplate J-like protein; Region: Baseplate_J; cl01294 1005058007587 Baseplate J-like protein; Region: Baseplate_J; pfam04865 1005058007588 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1005058007589 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1005058007590 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1005058007591 Protein of unknown function (DUF497); Region: DUF497; cl01108 1005058007592 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 1005058007593 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1005058007594 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 1005058007595 sequence-specific DNA binding site [nucleotide binding]; other site 1005058007596 salt bridge; other site 1005058007597 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1005058007598 cell division protein DedD; Provisional; Region: PRK11633 1005058007599 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1005058007600 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 1005058007601 active site 1005058007602 DNA binding site [nucleotide binding] 1005058007603 Int/Topo IB signature motif; other site 1005058007604 Initiator Replication protein; Region: Rep_3; pfam01051 1005058007605 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1005058007606 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1005058007607 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 1005058007608 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 1005058007609 active site 1005058007610 catalytic residues [active] 1005058007611 Int/Topo IB signature motif; other site 1005058007612 DNA binding site [nucleotide binding]