-- dump date 20140619_000753 -- class Genbank::misc_feature -- table misc_feature_note -- id note 657309000001 V-type ATP synthase subunit E; Provisional; Region: PRK01558 657309000002 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 657309000003 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 657309000004 V-type ATP synthase subunit A; Provisional; Region: PRK04192 657309000005 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657309000006 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 657309000007 Walker A motif/ATP binding site; other site 657309000008 Walker B motif; other site 657309000009 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657309000010 V-type ATP synthase subunit B; Provisional; Region: PRK02118 657309000011 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657309000012 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 657309000013 Walker A motif homologous position; other site 657309000014 Walker B motif; other site 657309000015 V-type ATP synthase subunit I; Validated; Region: PRK05771 657309000016 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 657309000017 V-type ATP synthase subunit K; Validated; Region: PRK08344 657309000018 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 657309000019 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 657309000020 Glycogen synthase; Region: Glycogen_syn; pfam05693 657309000021 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 657309000022 putative homodimer interface [polypeptide binding]; other site 657309000023 putative active site pocket [active] 657309000024 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 657309000025 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309000026 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309000027 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309000028 catalytic residues [active] 657309000029 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 657309000030 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 657309000031 Walker A/P-loop; other site 657309000032 ATP binding site [chemical binding]; other site 657309000033 Q-loop/lid; other site 657309000034 ABC transporter signature motif; other site 657309000035 Walker B; other site 657309000036 D-loop; other site 657309000037 H-loop/switch region; other site 657309000038 TOBE domain; Region: TOBE_2; pfam08402 657309000039 TOBE domain; Region: TOBE_2; pfam08402 657309000040 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657309000041 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 657309000042 dimer interface [polypeptide binding]; other site 657309000043 conserved gate region; other site 657309000044 putative PBP binding loops; other site 657309000045 ABC-ATPase subunit interface; other site 657309000046 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 657309000047 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 657309000048 A new structural DNA glycosylase; Region: AlkD_like; cd06561 657309000049 active site 657309000050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309000051 Response regulator receiver domain; Region: Response_reg; pfam00072 657309000052 active site 657309000053 phosphorylation site [posttranslational modification] 657309000054 intermolecular recognition site; other site 657309000055 dimerization interface [polypeptide binding]; other site 657309000056 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309000057 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309000058 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657309000059 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 657309000060 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 657309000061 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 657309000062 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 657309000063 putative substrate translocation pore; other site 657309000064 Domain of unknown function (DUF718); Region: DUF718; pfam05336 657309000065 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 657309000066 N- and C-terminal domain interface [polypeptide binding]; other site 657309000067 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 657309000068 active site 657309000069 putative catalytic site [active] 657309000070 metal binding site [ion binding]; metal-binding site 657309000071 ATP binding site [chemical binding]; other site 657309000072 carbohydrate binding site [chemical binding]; other site 657309000073 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 657309000074 active site 657309000075 intersubunit interface [polypeptide binding]; other site 657309000076 Zn2+ binding site [ion binding]; other site 657309000077 L-fucose isomerase; Provisional; Region: fucI; PRK10991 657309000078 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 657309000079 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657309000080 trimer interface [polypeptide binding]; other site 657309000081 substrate binding site [chemical binding]; other site 657309000082 Mn binding site [ion binding]; other site 657309000083 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 657309000084 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 657309000085 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 657309000086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309000087 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 657309000088 dimer interface [polypeptide binding]; other site 657309000089 phosphorylation site [posttranslational modification] 657309000090 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 657309000091 ATP binding site [chemical binding]; other site 657309000092 Mg2+ binding site [ion binding]; other site 657309000093 G-X-G motif; other site 657309000094 intracellular protease, PfpI family; Region: PfpI; TIGR01382 657309000095 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657309000096 conserved cys residue [active] 657309000097 Predicted transcriptional regulators [Transcription]; Region: COG1733 657309000098 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 657309000099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309000100 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 657309000101 Coenzyme A binding pocket [chemical binding]; other site 657309000102 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309000103 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309000104 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 657309000105 DNA binding residues [nucleotide binding] 657309000106 DinB superfamily; Region: DinB_2; pfam12867 657309000107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309000108 AAA domain; Region: AAA_13; pfam13166 657309000109 Walker A/P-loop; other site 657309000110 ATP binding site [chemical binding]; other site 657309000111 Inner membrane protein CreD; Region: CreD; pfam06123 657309000112 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657309000113 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 657309000114 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657309000115 DNA binding site [nucleotide binding] 657309000116 domain linker motif; other site 657309000117 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 657309000118 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 657309000119 ligand binding site [chemical binding]; other site 657309000120 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 657309000121 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657309000122 substrate binding site [chemical binding]; other site 657309000123 ATP binding site [chemical binding]; other site 657309000124 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 657309000125 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 657309000126 active site 657309000127 intersubunit interface [polypeptide binding]; other site 657309000128 catalytic residue [active] 657309000129 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 657309000130 putative transporter; Validated; Region: PRK03818 657309000131 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309000132 TrkA-C domain; Region: TrkA_C; pfam02080 657309000133 TrkA-C domain; Region: TrkA_C; pfam02080 657309000134 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309000135 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309000136 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309000137 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 657309000138 N-terminal plug; other site 657309000139 ligand-binding site [chemical binding]; other site 657309000140 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309000141 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 657309000142 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 657309000143 N-terminal plug; other site 657309000144 ligand-binding site [chemical binding]; other site 657309000145 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309000146 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657309000147 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657309000148 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 657309000149 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309000150 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309000151 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 657309000152 Cation efflux family; Region: Cation_efflux; pfam01545 657309000153 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309000154 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309000155 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309000156 active site 657309000157 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657309000158 PA14 domain; Region: PA14; pfam07691 657309000159 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 657309000160 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_5; cd06153 657309000161 homotrimer interaction site [polypeptide binding]; other site 657309000162 putative active site [active] 657309000163 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 657309000164 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 657309000165 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 657309000166 Imelysin; Region: Peptidase_M75; pfam09375 657309000167 Imelysin; Region: Peptidase_M75; pfam09375 657309000168 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 657309000169 flavodoxin FldA; Validated; Region: PRK09267 657309000170 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 657309000171 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 657309000172 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 657309000173 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657309000174 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 657309000175 DNA binding residues [nucleotide binding] 657309000176 dimerization interface [polypeptide binding]; other site 657309000177 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657309000178 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 657309000179 trimer interface [polypeptide binding]; other site 657309000180 active site 657309000181 substrate binding site [chemical binding]; other site 657309000182 CoA binding site [chemical binding]; other site 657309000183 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 657309000184 Bacterial sugar transferase; Region: Bac_transf; cl00939 657309000185 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657309000186 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309000187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309000188 active site 657309000189 phosphorylation site [posttranslational modification] 657309000190 intermolecular recognition site; other site 657309000191 dimerization interface [polypeptide binding]; other site 657309000192 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 657309000193 active site 657309000194 homodimer interface [polypeptide binding]; other site 657309000195 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 657309000196 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 657309000197 substrate binding site [chemical binding]; other site 657309000198 active site 657309000199 catalytic residues [active] 657309000200 heterodimer interface [polypeptide binding]; other site 657309000201 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 657309000202 active site 657309000203 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 657309000204 active site 657309000205 ribulose/triose binding site [chemical binding]; other site 657309000206 phosphate binding site [ion binding]; other site 657309000207 substrate (anthranilate) binding pocket [chemical binding]; other site 657309000208 product (indole) binding pocket [chemical binding]; other site 657309000209 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 657309000210 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 657309000211 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657309000212 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 657309000213 Glutamine amidotransferase class-I; Region: GATase; pfam00117 657309000214 glutamine binding [chemical binding]; other site 657309000215 catalytic triad [active] 657309000216 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 657309000217 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 657309000218 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 657309000219 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 657309000220 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 657309000221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309000222 catalytic residue [active] 657309000223 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 657309000224 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 657309000225 dimer interface [polypeptide binding]; other site 657309000226 active site 657309000227 metal binding site [ion binding]; metal-binding site 657309000228 PAS domain S-box; Region: sensory_box; TIGR00229 657309000229 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 657309000230 dimer interface [polypeptide binding]; other site 657309000231 phosphorylation site [posttranslational modification] 657309000232 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 657309000233 ATP binding site [chemical binding]; other site 657309000234 Mg2+ binding site [ion binding]; other site 657309000235 G-X-G motif; other site 657309000236 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 657309000237 transmembrane helices; other site 657309000238 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657309000239 TrkA-C domain; Region: TrkA_C; pfam02080 657309000240 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657309000241 TrkA-C domain; Region: TrkA_C; pfam02080 657309000242 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 657309000243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309000244 Coenzyme A binding pocket [chemical binding]; other site 657309000245 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 657309000246 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 657309000247 Nitrogen regulatory protein P-II; Region: P-II; smart00938 657309000248 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 657309000249 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 657309000250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309000251 homodimer interface [polypeptide binding]; other site 657309000252 catalytic residue [active] 657309000253 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 657309000254 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657309000255 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657309000256 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 657309000257 catalytic residues [active] 657309000258 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309000259 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 657309000260 putative active site [active] 657309000261 catalytic site [active] 657309000262 putative metal binding site [ion binding]; other site 657309000263 asparagine synthetase B; Provisional; Region: asnB; PRK09431 657309000264 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 657309000265 active site 657309000266 dimer interface [polypeptide binding]; other site 657309000267 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 657309000268 Ligand Binding Site [chemical binding]; other site 657309000269 Molecular Tunnel; other site 657309000270 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 657309000271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657309000272 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 657309000273 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 657309000274 active site 657309000275 dimer interface [polypeptide binding]; other site 657309000276 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 657309000277 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 657309000278 active site 657309000279 FMN binding site [chemical binding]; other site 657309000280 substrate binding site [chemical binding]; other site 657309000281 3Fe-4S cluster binding site [ion binding]; other site 657309000282 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 657309000283 domain interface; other site 657309000284 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 657309000285 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 657309000286 glutaminase active site [active] 657309000287 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 657309000288 dimer interface [polypeptide binding]; other site 657309000289 active site 657309000290 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 657309000291 dimer interface [polypeptide binding]; other site 657309000292 active site 657309000293 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 657309000294 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 657309000295 active site 657309000296 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309000297 active site 657309000298 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 657309000299 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 657309000300 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 657309000301 catalytic site [active] 657309000302 subunit interface [polypeptide binding]; other site 657309000303 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 657309000304 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657309000305 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657309000306 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657309000307 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657309000308 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309000309 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 657309000310 probable substrate binding site [chemical binding]; other site 657309000311 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 657309000312 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 657309000313 Substrate binding site; other site 657309000314 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309000315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309000316 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309000317 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 657309000318 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657309000319 Walker A/P-loop; other site 657309000320 ATP binding site [chemical binding]; other site 657309000321 Q-loop/lid; other site 657309000322 ABC transporter signature motif; other site 657309000323 Walker B; other site 657309000324 D-loop; other site 657309000325 H-loop/switch region; other site 657309000326 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309000327 Walker A/P-loop; other site 657309000328 ATP binding site [chemical binding]; other site 657309000329 Q-loop/lid; other site 657309000330 ABC transporter signature motif; other site 657309000331 Walker B; other site 657309000332 D-loop; other site 657309000333 H-loop/switch region; other site 657309000334 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 657309000335 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 657309000336 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 657309000337 ABC-2 type transporter; Region: ABC2_membrane; cl17235 657309000338 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 657309000339 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 657309000340 putative dimer interface [polypeptide binding]; other site 657309000341 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657309000342 KilA-N domain; Region: KilA-N; pfam04383 657309000343 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 657309000344 active site 657309000345 catalytic triad [active] 657309000346 oxyanion hole [active] 657309000347 excinuclease ABC subunit B; Provisional; Region: PRK05298 657309000348 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 657309000349 ATP binding site [chemical binding]; other site 657309000350 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 657309000351 nucleotide binding region [chemical binding]; other site 657309000352 ATP-binding site [chemical binding]; other site 657309000353 Ultra-violet resistance protein B; Region: UvrB; pfam12344 657309000354 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657309000355 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309000356 acyl-activating enzyme (AAE) consensus motif; other site 657309000357 AMP binding site [chemical binding]; other site 657309000358 active site 657309000359 CoA binding site [chemical binding]; other site 657309000360 ACT domain-containing protein [General function prediction only]; Region: COG4747 657309000361 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 657309000362 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 657309000363 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 657309000364 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 657309000365 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309000366 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309000367 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309000368 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309000369 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657309000370 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 657309000371 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657309000372 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657309000373 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 657309000374 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 657309000375 putative deacylase active site [active] 657309000376 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 657309000377 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 657309000378 POT family; Region: PTR2; cl17359 657309000379 Predicted transcriptional regulators [Transcription]; Region: COG1695 657309000380 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 657309000381 PspC domain; Region: PspC; pfam04024 657309000382 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657309000383 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657309000384 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 657309000385 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 657309000386 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 657309000387 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 657309000388 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309000389 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 657309000390 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309000391 membrane protein insertase; Provisional; Region: PRK01318 657309000392 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 657309000393 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 657309000394 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 657309000395 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657309000396 heterodimer interface [polypeptide binding]; other site 657309000397 homodimer interface [polypeptide binding]; other site 657309000398 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309000399 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309000400 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 657309000401 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 657309000402 dimer interface [polypeptide binding]; other site 657309000403 tetramer interface [polypeptide binding]; other site 657309000404 PYR/PP interface [polypeptide binding]; other site 657309000405 TPP binding site [chemical binding]; other site 657309000406 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 657309000407 TPP-binding site [chemical binding]; other site 657309000408 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657309000409 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657309000410 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 657309000411 trimer interface [polypeptide binding]; other site 657309000412 active site 657309000413 substrate binding site [chemical binding]; other site 657309000414 CoA binding site [chemical binding]; other site 657309000415 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309000416 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 657309000417 active site 657309000418 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 657309000419 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309000420 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 657309000421 active site 657309000422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309000423 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 657309000424 putative ADP-binding pocket [chemical binding]; other site 657309000425 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 657309000426 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 657309000427 putative ADP-binding pocket [chemical binding]; other site 657309000428 CoA-binding domain; Region: CoA_binding_3; pfam13727 657309000429 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657309000430 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 657309000431 amidase catalytic site [active] 657309000432 Zn binding residues [ion binding]; other site 657309000433 substrate binding site [chemical binding]; other site 657309000434 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309000435 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 657309000436 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309000437 VirE N-terminal domain; Region: VirE_N; pfam08800 657309000438 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309000439 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309000440 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309000441 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 657309000442 ferredoxin; Provisional; Region: PRK08764 657309000443 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 657309000444 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 657309000445 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657309000446 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657309000447 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 657309000448 SLBB domain; Region: SLBB; pfam10531 657309000449 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 657309000450 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 657309000451 FMN-binding domain; Region: FMN_bind; cl01081 657309000452 electron transport complex RsxE subunit; Provisional; Region: PRK12405 657309000453 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 657309000454 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 657309000455 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657309000456 NAD binding site [chemical binding]; other site 657309000457 homodimer interface [polypeptide binding]; other site 657309000458 active site 657309000459 substrate binding site [chemical binding]; other site 657309000460 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 657309000461 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657309000462 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 657309000463 replicative DNA helicase; Region: DnaB; TIGR00665 657309000464 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657309000465 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 657309000466 Walker A motif; other site 657309000467 ATP binding site [chemical binding]; other site 657309000468 Walker B motif; other site 657309000469 DNA binding loops [nucleotide binding] 657309000470 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 657309000471 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 657309000472 putative tRNA-binding site [nucleotide binding]; other site 657309000473 B3/4 domain; Region: B3_4; pfam03483 657309000474 tRNA synthetase B5 domain; Region: B5; smart00874 657309000475 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 657309000476 dimer interface [polypeptide binding]; other site 657309000477 motif 1; other site 657309000478 motif 3; other site 657309000479 motif 2; other site 657309000480 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 657309000481 hypothetical protein; Provisional; Region: PRK12378 657309000482 TSCPD domain; Region: TSCPD; cl14834 657309000483 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 657309000484 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 657309000485 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 657309000486 putative active site [active] 657309000487 putative catalytic site [active] 657309000488 putative DNA binding site [nucleotide binding]; other site 657309000489 putative phosphate binding site [ion binding]; other site 657309000490 metal binding site A [ion binding]; metal-binding site 657309000491 putative AP binding site [nucleotide binding]; other site 657309000492 putative metal binding site B [ion binding]; other site 657309000493 GTP-binding protein LepA; Provisional; Region: PRK05433 657309000494 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 657309000495 G1 box; other site 657309000496 putative GEF interaction site [polypeptide binding]; other site 657309000497 GTP/Mg2+ binding site [chemical binding]; other site 657309000498 Switch I region; other site 657309000499 G2 box; other site 657309000500 G3 box; other site 657309000501 Switch II region; other site 657309000502 G4 box; other site 657309000503 G5 box; other site 657309000504 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 657309000505 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 657309000506 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 657309000507 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 657309000508 RmuC family; Region: RmuC; pfam02646 657309000509 methionine aminopeptidase; Provisional; Region: PRK12318 657309000510 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 657309000511 active site 657309000512 B12 binding domain; Region: B12-binding; pfam02310 657309000513 B12 binding site [chemical binding]; other site 657309000514 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657309000515 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 657309000516 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; cl09940 657309000517 RNA binding surface [nucleotide binding]; other site 657309000518 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657309000519 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657309000520 active site 657309000521 pyruvate phosphate dikinase; Provisional; Region: PRK09279 657309000522 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657309000523 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657309000524 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657309000525 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657309000526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 657309000527 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 657309000528 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 657309000529 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309000530 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 657309000531 thiamine phosphate binding site [chemical binding]; other site 657309000532 active site 657309000533 pyrophosphate binding site [ion binding]; other site 657309000534 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 657309000535 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 657309000536 FeS/SAM binding site; other site 657309000537 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 657309000538 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 657309000539 ThiC-associated domain; Region: ThiC-associated; pfam13667 657309000540 ThiC family; Region: ThiC; pfam01964 657309000541 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 657309000542 ThiS interaction site; other site 657309000543 putative active site [active] 657309000544 tetramer interface [polypeptide binding]; other site 657309000545 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 657309000546 thiamine phosphate binding site [chemical binding]; other site 657309000547 active site 657309000548 pyrophosphate binding site [ion binding]; other site 657309000549 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 657309000550 thiS-thiF/thiG interaction site; other site 657309000551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309000552 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 657309000553 dimer interface [polypeptide binding]; other site 657309000554 phosphorylation site [posttranslational modification] 657309000555 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 657309000556 ATP binding site [chemical binding]; other site 657309000557 G-X-G motif; other site 657309000558 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 657309000559 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 657309000560 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 657309000561 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 657309000562 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 657309000563 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 657309000564 dimer interface [polypeptide binding]; other site 657309000565 active site 657309000566 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657309000567 catalytic residues [active] 657309000568 substrate binding site [chemical binding]; other site 657309000569 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 657309000570 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 657309000571 active site 657309000572 dimer interface [polypeptide binding]; other site 657309000573 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 657309000574 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 657309000575 active site 657309000576 dimer interface [polypeptide binding]; other site 657309000577 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 657309000578 catalytic residues [active] 657309000579 Outer membrane efflux protein; Region: OEP; pfam02321 657309000580 Outer membrane efflux protein; Region: OEP; pfam02321 657309000581 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 657309000582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309000583 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 657309000584 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309000585 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 657309000586 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309000587 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 657309000588 dimerization interface [polypeptide binding]; other site 657309000589 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 657309000590 dimer interface [polypeptide binding]; other site 657309000591 phosphorylation site [posttranslational modification] 657309000592 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 657309000593 ATP binding site [chemical binding]; other site 657309000594 Mg2+ binding site [ion binding]; other site 657309000595 G-X-G motif; other site 657309000596 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657309000597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309000598 active site 657309000599 phosphorylation site [posttranslational modification] 657309000600 intermolecular recognition site; other site 657309000601 dimerization interface [polypeptide binding]; other site 657309000602 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 657309000603 DNA binding site [nucleotide binding] 657309000604 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 657309000605 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309000606 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 657309000607 acyl-activating enzyme (AAE) consensus motif; other site 657309000608 putative AMP binding site [chemical binding]; other site 657309000609 putative active site [active] 657309000610 putative CoA binding site [chemical binding]; other site 657309000611 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 657309000612 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 657309000613 TrkA-C domain; Region: TrkA_C; pfam02080 657309000614 uracil-xanthine permease; Region: ncs2; TIGR00801 657309000615 hybrid cluster protein; Provisional; Region: PRK05290 657309000616 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 657309000617 ACS interaction site; other site 657309000618 CODH interaction site; other site 657309000619 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 657309000620 hybrid metal cluster; other site 657309000621 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309000622 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 657309000623 ligand binding site [chemical binding]; other site 657309000624 flexible hinge region; other site 657309000625 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 657309000626 putative switch regulator; other site 657309000627 non-specific DNA interactions [nucleotide binding]; other site 657309000628 DNA binding site [nucleotide binding] 657309000629 sequence specific DNA binding site [nucleotide binding]; other site 657309000630 putative cAMP binding site [chemical binding]; other site 657309000631 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 657309000632 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 657309000633 ATP binding site [chemical binding]; other site 657309000634 Mg2+ binding site [ion binding]; other site 657309000635 G-X-G motif; other site 657309000636 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309000637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309000638 active site 657309000639 phosphorylation site [posttranslational modification] 657309000640 intermolecular recognition site; other site 657309000641 dimerization interface [polypeptide binding]; other site 657309000642 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 657309000643 Walker A motif; other site 657309000644 ATP binding site [chemical binding]; other site 657309000645 Walker B motif; other site 657309000646 arginine finger; other site 657309000647 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309000648 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309000649 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309000650 active site 657309000651 metal binding site [ion binding]; metal-binding site 657309000652 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309000653 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657309000654 Walker A/P-loop; other site 657309000655 ATP binding site [chemical binding]; other site 657309000656 Q-loop/lid; other site 657309000657 ABC transporter signature motif; other site 657309000658 Walker B; other site 657309000659 D-loop; other site 657309000660 H-loop/switch region; other site 657309000661 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309000662 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657309000663 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657309000664 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657309000665 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 657309000666 motif II; other site 657309000667 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 657309000668 oligomerization interface [polypeptide binding]; other site 657309000669 active site 657309000670 metal binding site [ion binding]; metal-binding site 657309000671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309000672 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 657309000673 putative substrate translocation pore; other site 657309000674 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657309000675 HD domain; Region: HD_4; pfam13328 657309000676 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657309000677 synthetase active site [active] 657309000678 NTP binding site [chemical binding]; other site 657309000679 metal binding site [ion binding]; metal-binding site 657309000680 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 657309000681 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 657309000682 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 657309000683 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 657309000684 Chloramphenicol acetyltransferase; Region: CAT; smart01059 657309000685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309000686 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 657309000687 ligand binding site [chemical binding]; other site 657309000688 flexible hinge region; other site 657309000689 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 657309000690 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657309000691 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309000692 Coenzyme A binding pocket [chemical binding]; other site 657309000693 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 657309000694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309000695 ATP-grasp domain; Region: ATP-grasp; pfam02222 657309000696 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 657309000697 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657309000698 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 657309000699 alpha subunit interaction interface [polypeptide binding]; other site 657309000700 Walker A motif; other site 657309000701 ATP binding site [chemical binding]; other site 657309000702 Walker B motif; other site 657309000703 inhibitor binding site; inhibition site 657309000704 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657309000705 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657309000706 gamma subunit interface [polypeptide binding]; other site 657309000707 LBP interface [polypeptide binding]; other site 657309000708 ATP synthase A chain; Region: ATP-synt_A; cl00413 657309000709 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 657309000710 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657309000711 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 657309000712 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 657309000713 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 657309000714 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657309000715 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 657309000716 beta subunit interaction interface [polypeptide binding]; other site 657309000717 Walker A motif; other site 657309000718 ATP binding site [chemical binding]; other site 657309000719 Walker B motif; other site 657309000720 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657309000721 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 657309000722 core domain interface [polypeptide binding]; other site 657309000723 delta subunit interface [polypeptide binding]; other site 657309000724 epsilon subunit interface [polypeptide binding]; other site 657309000725 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 657309000726 PIF1-like helicase; Region: PIF1; pfam05970 657309000727 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 657309000728 Walker A motif; other site 657309000729 ATP binding site [chemical binding]; other site 657309000730 Walker B motif; other site 657309000731 Family description; Region: UvrD_C_2; pfam13538 657309000732 HRDC domain; Region: HRDC; pfam00570 657309000733 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 657309000734 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 657309000735 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 657309000736 NADP binding site [chemical binding]; other site 657309000737 active site 657309000738 putative substrate binding site [chemical binding]; other site 657309000739 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 657309000740 hypothetical protein; Reviewed; Region: PRK09588 657309000741 Clostripain family; Region: Peptidase_C11; pfam03415 657309000742 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309000743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309000744 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309000745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309000746 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657309000747 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 657309000748 putative NAD(P) binding site [chemical binding]; other site 657309000749 active site 657309000750 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 657309000751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309000752 homodimer interface [polypeptide binding]; other site 657309000753 catalytic residue [active] 657309000754 aspartate aminotransferase; Provisional; Region: PRK09275 657309000755 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 657309000756 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309000757 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309000758 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 657309000759 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 657309000760 Potassium binding sites [ion binding]; other site 657309000761 Cesium cation binding sites [ion binding]; other site 657309000762 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 657309000763 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 657309000764 dimer interface [polypeptide binding]; other site 657309000765 active site 657309000766 glycine-pyridoxal phosphate binding site [chemical binding]; other site 657309000767 folate binding site [chemical binding]; other site 657309000768 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309000769 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 657309000770 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 657309000771 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 657309000772 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 657309000773 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 657309000774 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657309000775 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657309000776 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 657309000777 Domain of unknown function, B. Theta Gene description (DUF4119); Region: DUF4119; pfam13494 657309000778 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 657309000779 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 657309000780 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 657309000781 active site 657309000782 catalytic residues [active] 657309000783 DNA binding site [nucleotide binding] 657309000784 Int/Topo IB signature motif; other site 657309000785 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 657309000786 transcriptional activator RfaH; Region: RfaH; TIGR01955 657309000787 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 657309000788 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 657309000789 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 657309000790 substrate binding site; other site 657309000791 tetramer interface; other site 657309000792 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 657309000793 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 657309000794 NADP binding site [chemical binding]; other site 657309000795 active site 657309000796 putative substrate binding site [chemical binding]; other site 657309000797 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 657309000798 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 657309000799 NAD binding site [chemical binding]; other site 657309000800 substrate binding site [chemical binding]; other site 657309000801 homodimer interface [polypeptide binding]; other site 657309000802 active site 657309000803 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309000804 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 657309000805 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 657309000806 putative ligand binding site [chemical binding]; other site 657309000807 putative catalytic site [active] 657309000808 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 657309000809 active site 657309000810 substrate binding site [chemical binding]; other site 657309000811 trimer interface [polypeptide binding]; other site 657309000812 CoA binding site [chemical binding]; other site 657309000813 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657309000814 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 657309000815 putative NAD(P) binding site [chemical binding]; other site 657309000816 active site 657309000817 putative substrate binding site [chemical binding]; other site 657309000818 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 657309000819 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 657309000820 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 657309000821 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 657309000822 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 657309000823 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 657309000824 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 657309000825 NADP-binding site; other site 657309000826 homotetramer interface [polypeptide binding]; other site 657309000827 substrate binding site [chemical binding]; other site 657309000828 homodimer interface [polypeptide binding]; other site 657309000829 active site 657309000830 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 657309000831 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657309000832 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 657309000833 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 657309000834 Chain length determinant protein; Region: Wzz; pfam02706 657309000835 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 657309000836 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657309000837 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309000838 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309000839 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309000840 Transglycosylase; Region: Transgly; pfam00912 657309000841 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657309000842 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; cl00233 657309000843 catalytic center binding site [active] 657309000844 ATP binding site [chemical binding]; other site 657309000845 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 657309000846 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 657309000847 Ligand binding site; other site 657309000848 oligomer interface; other site 657309000849 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657309000850 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657309000851 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657309000852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 657309000853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 657309000854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 657309000855 MORN repeat; Region: MORN; cl14787 657309000856 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 657309000857 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 657309000858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309000859 active site 657309000860 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309000861 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 657309000862 ATP binding site [chemical binding]; other site 657309000863 Mg2+ binding site [ion binding]; other site 657309000864 G-X-G motif; other site 657309000865 GAF domain; Region: GAF_3; pfam13492 657309000866 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309000867 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 657309000868 ATP binding site [chemical binding]; other site 657309000869 Mg2+ binding site [ion binding]; other site 657309000870 G-X-G motif; other site 657309000871 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657309000872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 657309000873 active site 657309000874 phosphorylation site [posttranslational modification] 657309000875 intermolecular recognition site; other site 657309000876 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 657309000877 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 657309000878 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 657309000879 binding surface 657309000880 TPR motif; other site 657309000881 para-aminobenzoate synthase component I; Validated; Region: PRK07093 657309000882 hypothetical protein; Provisional; Region: PRK07101 657309000883 substrate-cofactor binding pocket; other site 657309000884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309000885 catalytic residue [active] 657309000886 TIGR02453 family protein; Region: TIGR02453 657309000887 Domain of unknown function (DUF386); Region: DUF386; cl01047 657309000888 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 657309000889 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309000890 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 657309000891 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657309000892 active site 657309000893 catalytic site [active] 657309000894 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 657309000895 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 657309000896 active site 657309000897 nucleophile elbow; other site 657309000898 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309000899 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309000900 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309000901 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 657309000902 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309000903 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309000904 Calx-beta domain; Region: Calx-beta; cl02522 657309000905 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309000906 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309000907 catalytic residues [active] 657309000908 Outer membrane protein Omp28; Region: Omp28; pfam11551 657309000909 Outer membrane protein Omp28; Region: Omp28; pfam11551 657309000910 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309000911 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 657309000912 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657309000913 Active site serine [active] 657309000914 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 657309000915 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 657309000916 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 657309000917 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 657309000918 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 657309000919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 657309000920 Right handed beta helix region; Region: Beta_helix; pfam13229 657309000921 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309000922 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309000923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309000924 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 657309000925 DNA binding residues [nucleotide binding] 657309000926 FecR protein; Region: FecR; pfam04773 657309000927 Creatinine amidohydrolase; Region: Creatininase; pfam02633 657309000928 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309000929 SusD family; Region: SusD; pfam07980 657309000930 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309000931 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309000932 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309000933 PQQ-like domain; Region: PQQ_2; pfam13360 657309000934 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 657309000935 Trp docking motif [polypeptide binding]; other site 657309000936 active site 657309000937 PQQ-like domain; Region: PQQ_2; pfam13360 657309000938 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309000939 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 657309000940 Class I aldolases; Region: Aldolase_Class_I; cl17187 657309000941 catalytic residue [active] 657309000942 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 657309000943 dimerization interface [polypeptide binding]; other site 657309000944 putative active cleft [active] 657309000945 Domain of unknown function (DUF386); Region: DUF386; cl01047 657309000946 D-galactonate transporter; Region: 2A0114; TIGR00893 657309000947 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 657309000948 putative substrate translocation pore; other site 657309000949 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657309000950 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657309000951 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 657309000952 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 657309000953 PAS domain S-box; Region: sensory_box; TIGR00229 657309000954 PAS fold; Region: PAS_3; pfam08447 657309000955 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 657309000956 dimer interface [polypeptide binding]; other site 657309000957 phosphorylation site [posttranslational modification] 657309000958 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 657309000959 ATP binding site [chemical binding]; other site 657309000960 Mg2+ binding site [ion binding]; other site 657309000961 G-X-G motif; other site 657309000962 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309000963 active site 657309000964 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309000965 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309000966 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309000967 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 657309000968 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 657309000969 metal binding site [ion binding]; metal-binding site 657309000970 PAS fold; Region: PAS_3; pfam08447 657309000971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309000972 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 657309000973 dimer interface [polypeptide binding]; other site 657309000974 phosphorylation site [posttranslational modification] 657309000975 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 657309000976 ATP binding site [chemical binding]; other site 657309000977 Mg2+ binding site [ion binding]; other site 657309000978 G-X-G motif; other site 657309000979 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657309000980 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309000981 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309000982 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309000983 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657309000984 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309000985 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309000986 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309000987 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 657309000988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 657309000989 ACT domain; Region: ACT_3; pfam10000 657309000990 Family description; Region: ACT_7; pfam13840 657309000991 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309000992 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309000993 catalytic residues [active] 657309000994 AAA domain; Region: AAA_21; pfam13304 657309000995 AAA domain; Region: AAA_21; pfam13304 657309000996 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309000997 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 657309000998 OmpA family; Region: OmpA; pfam00691 657309000999 ligand binding site [chemical binding]; other site 657309001000 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 657309001001 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 657309001002 AAA domain; Region: AAA_21; pfam13304 657309001003 RloB-like protein; Region: RloB; pfam13707 657309001004 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 657309001005 sugar binding site [chemical binding]; other site 657309001006 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309001007 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309001008 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309001009 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309001010 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309001011 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 657309001012 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309001013 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309001014 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309001015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309001016 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 657309001017 dimer interface [polypeptide binding]; other site 657309001018 phosphorylation site [posttranslational modification] 657309001019 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 657309001020 ATP binding site [chemical binding]; other site 657309001021 Mg2+ binding site [ion binding]; other site 657309001022 G-X-G motif; other site 657309001023 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309001024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309001025 active site 657309001026 phosphorylation site [posttranslational modification] 657309001027 intermolecular recognition site; other site 657309001028 dimerization interface [polypeptide binding]; other site 657309001029 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309001030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309001031 Pectate lyase; Region: Pec_lyase_C; cl01593 657309001032 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309001033 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309001034 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 657309001035 DNA binding residues [nucleotide binding] 657309001036 Uncharacterized conserved protein [Function unknown]; Region: COG2966 657309001037 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 657309001038 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 657309001039 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 657309001040 short chain dehydrogenase; Validated; Region: PRK06182 657309001041 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 657309001042 NADP binding site [chemical binding]; other site 657309001043 active site 657309001044 steroid binding site; other site 657309001045 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 657309001046 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 657309001047 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 657309001048 TPR motif; other site 657309001049 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309001050 binding surface 657309001051 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 657309001052 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 657309001053 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309001054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309001055 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 657309001056 DNA binding residues [nucleotide binding] 657309001057 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309001058 FecR protein; Region: FecR; pfam04773 657309001059 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309001060 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309001061 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657309001062 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657309001063 4Fe-4S binding domain; Region: Fer4_5; pfam12801 657309001064 Ferredoxin [Energy production and conversion]; Region: COG1146 657309001065 ferredoxin-type protein; Provisional; Region: PRK10194 657309001066 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 657309001067 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 657309001068 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 657309001069 active site 657309001070 catalytic tetrad [active] 657309001071 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 657309001072 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657309001073 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657309001074 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 657309001075 Outer membrane efflux protein; Region: OEP; pfam02321 657309001076 Outer membrane efflux protein; Region: OEP; pfam02321 657309001077 prolyl-tRNA synthetase; Provisional; Region: PRK08661 657309001078 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_arch_euk; cd00778 657309001079 dimer interface [polypeptide binding]; other site 657309001080 motif 1; other site 657309001081 active site 657309001082 motif 2; other site 657309001083 motif 3; other site 657309001084 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 657309001085 anticodon binding site; other site 657309001086 zinc-binding site [ion binding]; other site 657309001087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657309001088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309001089 active site 657309001090 phosphorylation site [posttranslational modification] 657309001091 intermolecular recognition site; other site 657309001092 dimerization interface [polypeptide binding]; other site 657309001093 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 657309001094 DNA binding site [nucleotide binding] 657309001095 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309001096 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 657309001097 dimer interface [polypeptide binding]; other site 657309001098 phosphorylation site [posttranslational modification] 657309001099 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 657309001100 ATP binding site [chemical binding]; other site 657309001101 Mg2+ binding site [ion binding]; other site 657309001102 G-X-G motif; other site 657309001103 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 657309001104 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657309001105 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 657309001106 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657309001107 Walker A/P-loop; other site 657309001108 ATP binding site [chemical binding]; other site 657309001109 Q-loop/lid; other site 657309001110 ABC transporter signature motif; other site 657309001111 Walker B; other site 657309001112 D-loop; other site 657309001113 H-loop/switch region; other site 657309001114 Predicted membrane protein [Function unknown]; Region: COG1470 657309001115 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 657309001116 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 657309001117 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309001118 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309001119 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309001120 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309001121 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309001122 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309001123 Family of unknown function (DUF490); Region: DUF490; pfam04357 657309001124 UGMP family protein; Validated; Region: PRK09604 657309001125 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657309001126 competence damage-inducible protein A; Provisional; Region: PRK00549 657309001127 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 657309001128 putative MPT binding site; other site 657309001129 Competence-damaged protein; Region: CinA; pfam02464 657309001130 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 657309001131 ribosomal protein L33; Region: rpl33; CHL00104 657309001132 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 657309001133 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 657309001134 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 657309001135 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 657309001136 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 657309001137 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657309001138 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 657309001139 FeS/SAM binding site; other site 657309001140 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 657309001141 IHF dimer interface [polypeptide binding]; other site 657309001142 IHF - DNA interface [nucleotide binding]; other site 657309001143 MoxR-like ATPases [General function prediction only]; Region: COG0714 657309001144 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 657309001145 Walker A motif; other site 657309001146 ATP binding site [chemical binding]; other site 657309001147 Walker B motif; other site 657309001148 arginine finger; other site 657309001149 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 657309001150 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 657309001151 metal ion-dependent adhesion site (MIDAS); other site 657309001152 Oxygen tolerance; Region: BatD; pfam13584 657309001153 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 657309001154 metal ion-dependent adhesion site (MIDAS); other site 657309001155 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 657309001156 binding surface 657309001157 TPR repeat; Region: TPR_11; pfam13414 657309001158 TPR motif; other site 657309001159 TPR repeat; Region: TPR_11; pfam13414 657309001160 Oxygen tolerance; Region: BatD; pfam13584 657309001161 TPR repeat; Region: TPR_11; pfam13414 657309001162 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 657309001163 binding surface 657309001164 TPR motif; other site 657309001165 DNA gyrase subunit A; Validated; Region: PRK05560 657309001166 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 657309001167 CAP-like domain; other site 657309001168 active site 657309001169 primary dimer interface [polypeptide binding]; other site 657309001170 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657309001171 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657309001172 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657309001173 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657309001174 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657309001175 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 657309001176 Clp amino terminal domain; Region: Clp_N; pfam02861 657309001177 Clp amino terminal domain; Region: Clp_N; pfam02861 657309001178 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 657309001179 Walker A motif; other site 657309001180 ATP binding site [chemical binding]; other site 657309001181 Walker B motif; other site 657309001182 arginine finger; other site 657309001183 UvrB/uvrC motif; Region: UVR; pfam02151 657309001184 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 657309001185 Walker A motif; other site 657309001186 ATP binding site [chemical binding]; other site 657309001187 Walker B motif; other site 657309001188 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657309001189 heat shock protein 90; Provisional; Region: PRK05218 657309001190 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 657309001191 ATP binding site [chemical binding]; other site 657309001192 Mg2+ binding site [ion binding]; other site 657309001193 G-X-G motif; other site 657309001194 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 657309001195 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 657309001196 active site 657309001197 nucleophile elbow; other site 657309001198 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657309001199 dihydrodipicolinate synthase; Region: dapA; TIGR00674 657309001200 dimer interface [polypeptide binding]; other site 657309001201 active site 657309001202 catalytic residue [active] 657309001203 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 657309001204 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 657309001205 nucleotide binding pocket [chemical binding]; other site 657309001206 K-X-D-G motif; other site 657309001207 catalytic site [active] 657309001208 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 657309001209 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 657309001210 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 657309001211 Dimer interface [polypeptide binding]; other site 657309001212 BRCT sequence motif; other site 657309001213 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 657309001214 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 657309001215 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 657309001216 heterodimer interface [polypeptide binding]; other site 657309001217 active site 657309001218 FMN binding site [chemical binding]; other site 657309001219 homodimer interface [polypeptide binding]; other site 657309001220 substrate binding site [chemical binding]; other site 657309001221 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 657309001222 non-specific DNA binding site [nucleotide binding]; other site 657309001223 salt bridge; other site 657309001224 sequence-specific DNA binding site [nucleotide binding]; other site 657309001225 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 657309001226 DNA polymerase III, delta subunit; Region: holA; TIGR01128 657309001227 AMP nucleosidase; Provisional; Region: PRK07115 657309001228 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 657309001229 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309001230 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309001231 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309001232 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309001233 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 657309001234 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 657309001235 Putative zinc ribbon domain; Region: DUF164; pfam02591 657309001236 Uncharacterized conserved protein [Function unknown]; Region: COG0327 657309001237 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 657309001238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 657309001239 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 657309001240 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309001241 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309001242 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 657309001243 DNA binding residues [nucleotide binding] 657309001244 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309001245 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 657309001246 Walker A/P-loop; other site 657309001247 ATP binding site [chemical binding]; other site 657309001248 Q-loop/lid; other site 657309001249 ABC transporter signature motif; other site 657309001250 Walker B; other site 657309001251 D-loop; other site 657309001252 H-loop/switch region; other site 657309001253 WYL domain; Region: WYL; pfam13280 657309001254 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 657309001255 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309001256 Restriction endonuclease; Region: Mrr_cat; pfam04471 657309001257 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 657309001258 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 657309001259 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 657309001260 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 657309001261 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 657309001262 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 657309001263 putative active site; other site 657309001264 catalytic triad [active] 657309001265 putative dimer interface [polypeptide binding]; other site 657309001266 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 657309001267 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657309001268 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657309001269 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 657309001270 S-adenosylmethionine binding site [chemical binding]; other site 657309001271 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 657309001272 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 657309001273 active site 657309001274 catalytic residues [active] 657309001275 DNA binding site [nucleotide binding] 657309001276 Int/Topo IB signature motif; other site 657309001277 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 657309001278 amidase catalytic site [active] 657309001279 Zn binding residues [ion binding]; other site 657309001280 substrate binding site [chemical binding]; other site 657309001281 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309001282 active site 657309001283 metal binding site [ion binding]; metal-binding site 657309001284 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 657309001285 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 657309001286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 657309001287 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 657309001288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 657309001289 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 657309001290 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 657309001291 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 657309001292 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 657309001293 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 657309001294 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 657309001295 S-adenosylmethionine binding site [chemical binding]; other site 657309001296 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 657309001297 Found in ATP-dependent protease La (LON); Region: LON; smart00464 657309001298 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 657309001299 Walker A motif; other site 657309001300 ATP binding site [chemical binding]; other site 657309001301 Walker B motif; other site 657309001302 arginine finger; other site 657309001303 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657309001304 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 657309001305 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 657309001306 Predicted permeases [General function prediction only]; Region: COG0795 657309001307 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 657309001308 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 657309001309 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 657309001310 phosphoserine phosphatase SerB; Region: serB; TIGR00338 657309001311 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 657309001312 motif II; other site 657309001313 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 657309001314 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657309001315 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 657309001316 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 657309001317 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 657309001318 Sporulation related domain; Region: SPOR; pfam05036 657309001319 altronate oxidoreductase; Provisional; Region: PRK03643 657309001320 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 657309001321 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 657309001322 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657309001323 DNA binding site [nucleotide binding] 657309001324 domain linker motif; other site 657309001325 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 657309001326 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 657309001327 ligand binding site [chemical binding]; other site 657309001328 Glucuronate isomerase; Region: UxaC; cl00829 657309001329 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 657309001330 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 657309001331 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 657309001332 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 657309001333 motif I; other site 657309001334 active site 657309001335 DoxX; Region: DoxX; pfam07681 657309001336 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 657309001337 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 657309001338 Surface antigen; Region: Bac_surface_Ag; pfam01103 657309001339 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657309001340 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657309001341 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 657309001342 lipoprotein signal peptidase; Provisional; Region: PRK14787 657309001343 lipoprotein signal peptidase; Provisional; Region: PRK14788 657309001344 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 657309001345 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 657309001346 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 657309001347 Predicted amidohydrolase [General function prediction only]; Region: COG0388 657309001348 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 657309001349 putative active site [active] 657309001350 catalytic triad [active] 657309001351 putative dimer interface [polypeptide binding]; other site 657309001352 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 657309001353 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309001354 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657309001355 Int/Topo IB signature motif; other site 657309001356 Predicted ATPase [General function prediction only]; Region: COG5293 657309001357 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657309001358 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 657309001359 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 657309001360 active site 657309001361 DNA binding site [nucleotide binding] 657309001362 Int/Topo IB signature motif; other site 657309001363 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309001364 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309001365 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309001366 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309001367 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309001368 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 657309001369 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 657309001370 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 657309001371 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 657309001372 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 657309001373 putative substrate translocation pore; other site 657309001374 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 657309001375 xylose isomerase; Provisional; Region: PRK05474 657309001376 xylose isomerase; Region: xylose_isom_A; TIGR02630 657309001377 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 657309001378 D-xylulose kinases, subgroup 2; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_2; cd07810 657309001379 putative N- and C-terminal domain interface [polypeptide binding]; other site 657309001380 putative active site [active] 657309001381 putative MgATP binding site [chemical binding]; other site 657309001382 catalytic site [active] 657309001383 metal binding site [ion binding]; metal-binding site 657309001384 putative xylulose binding site [chemical binding]; other site 657309001385 putative homodimer interface [polypeptide binding]; other site 657309001386 NUDIX domain; Region: NUDIX; pfam00293 657309001387 nudix motif; other site 657309001388 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 657309001389 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 657309001390 dimer interface [polypeptide binding]; other site 657309001391 substrate binding site [chemical binding]; other site 657309001392 ATP binding site [chemical binding]; other site 657309001393 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657309001394 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 657309001395 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 657309001396 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 657309001397 CoA-ligase; Region: Ligase_CoA; pfam00549 657309001398 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 657309001399 CoA binding domain; Region: CoA_binding; smart00881 657309001400 CoA-ligase; Region: Ligase_CoA; pfam00549 657309001401 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 657309001402 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 657309001403 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 657309001404 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657309001405 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 657309001406 Uncharacterized conserved protein [Function unknown]; Region: COG2006 657309001407 Domain of unknown function (DUF362); Region: DUF362; pfam04015 657309001408 4Fe-4S binding domain; Region: Fer4_5; pfam12801 657309001409 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 657309001410 ferredoxin-type protein NapF; Region: napF; TIGR00402 657309001411 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657309001412 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 657309001413 WYL domain; Region: WYL; pfam13280 657309001414 Uncharacterized conserved protein [Function unknown]; Region: COG4933 657309001415 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 657309001416 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 657309001417 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 657309001418 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 657309001419 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 657309001420 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309001421 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 657309001422 BNR repeat-like domain; Region: BNR_2; pfam13088 657309001423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309001424 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 657309001425 NAD(P) binding site [chemical binding]; other site 657309001426 active site 657309001427 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 657309001428 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309001429 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 657309001430 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 657309001431 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309001432 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309001433 active site 657309001434 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 657309001435 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309001436 SusD family; Region: SusD; pfam07980 657309001437 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309001438 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309001439 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309001440 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309001441 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 657309001442 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309001443 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309001444 muropeptide transporter; Reviewed; Region: ampG; PRK11902 657309001445 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 657309001446 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309001447 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309001448 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309001449 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657309001450 active site 657309001451 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309001452 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309001453 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309001454 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309001455 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309001456 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309001457 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309001458 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309001459 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309001460 FecR protein; Region: FecR; pfam04773 657309001461 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309001462 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309001463 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 657309001464 DNA binding residues [nucleotide binding] 657309001465 Domain of unknown function (DUF386); Region: DUF386; cl01047 657309001466 Part of AAA domain; Region: AAA_19; pfam13245 657309001467 putative recombination protein RecB; Provisional; Region: PRK13909 657309001468 Family description; Region: UvrD_C_2; pfam13538 657309001469 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 657309001470 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657309001471 FeS/SAM binding site; other site 657309001472 Gram-negative bacterial tonB protein; Region: TonB; cl10048 657309001473 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309001474 probable DNA repair protein; Region: TIGR03623 657309001475 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657309001476 Response regulator receiver domain; Region: Response_reg; pfam00072 657309001477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309001478 active site 657309001479 phosphorylation site [posttranslational modification] 657309001480 intermolecular recognition site; other site 657309001481 dimerization interface [polypeptide binding]; other site 657309001482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309001483 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 657309001484 dimer interface [polypeptide binding]; other site 657309001485 phosphorylation site [posttranslational modification] 657309001486 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 657309001487 ATP binding site [chemical binding]; other site 657309001488 Mg2+ binding site [ion binding]; other site 657309001489 G-X-G motif; other site 657309001490 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657309001491 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 657309001492 NAD binding site [chemical binding]; other site 657309001493 putative substrate binding site 2 [chemical binding]; other site 657309001494 putative substrate binding site 1 [chemical binding]; other site 657309001495 active site 657309001496 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 657309001497 OmpW family; Region: OmpW; cl17427 657309001498 Tandemly repeated domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like; cl17916 657309001499 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 657309001500 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 657309001501 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 657309001502 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 657309001503 ligand binding site [chemical binding]; other site 657309001504 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309001505 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 657309001506 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 657309001507 Active Sites [active] 657309001508 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 657309001509 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657309001510 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 657309001511 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 657309001512 dimer interface [polypeptide binding]; other site 657309001513 active site 657309001514 CoA binding pocket [chemical binding]; other site 657309001515 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 657309001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309001517 homodimer interface [polypeptide binding]; other site 657309001518 catalytic residue [active] 657309001519 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 657309001520 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657309001521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309001522 Coenzyme A binding pocket [chemical binding]; other site 657309001523 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 657309001524 Na binding site [ion binding]; other site 657309001525 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 657309001526 G1 box; other site 657309001527 GTP/Mg2+ binding site [chemical binding]; other site 657309001528 Switch I region; other site 657309001529 G2 box; other site 657309001530 G3 box; other site 657309001531 Switch II region; other site 657309001532 G4 box; other site 657309001533 G5 box; other site 657309001534 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 657309001535 OPT oligopeptide transporter protein; Region: OPT; pfam03169 657309001536 putative oligopeptide transporter, OPT family; Region: TIGR00733 657309001537 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 657309001538 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309001539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309001540 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657309001541 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 657309001542 metal-binding site [ion binding] 657309001543 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657309001544 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657309001545 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 657309001546 metal-binding site [ion binding] 657309001547 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309001548 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 657309001549 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 657309001550 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 657309001551 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309001552 putative active site [active] 657309001553 putative metal binding site [ion binding]; other site 657309001554 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 657309001555 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 657309001556 FMN binding site [chemical binding]; other site 657309001557 dimer interface [polypeptide binding]; other site 657309001558 HpaII restriction endonuclease; Region: RE_HpaII; pfam09561 657309001559 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 657309001560 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 657309001561 Uncharacterized conserved protein [Function unknown]; Region: COG4198 657309001562 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 657309001563 putative ligand binding site [chemical binding]; other site 657309001564 putative NAD binding site [chemical binding]; other site 657309001565 putative catalytic site [active] 657309001566 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 657309001567 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657309001568 catalytic residue [active] 657309001569 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 657309001570 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 657309001571 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 657309001572 ATP binding site [chemical binding]; other site 657309001573 putative Mg++ binding site [ion binding]; other site 657309001574 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 657309001575 nucleotide binding region [chemical binding]; other site 657309001576 ATP-binding site [chemical binding]; other site 657309001577 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 657309001578 RNA binding site [nucleotide binding]; other site 657309001579 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 657309001580 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 657309001581 catalytic loop [active] 657309001582 iron binding site [ion binding]; other site 657309001583 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 657309001584 FAD binding pocket [chemical binding]; other site 657309001585 FAD binding motif [chemical binding]; other site 657309001586 phosphate binding motif [ion binding]; other site 657309001587 beta-alpha-beta structure motif; other site 657309001588 NAD binding pocket [chemical binding]; other site 657309001589 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 657309001590 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 657309001591 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 657309001592 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 657309001593 trimer interface [polypeptide binding]; other site 657309001594 active site 657309001595 G bulge; other site 657309001596 Surface antigen; Region: Bac_surface_Ag; pfam01103 657309001597 Outer membrane efflux protein; Region: OEP; pfam02321 657309001598 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 657309001599 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 657309001600 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657309001601 Probable Catalytic site; other site 657309001602 metal-binding site 657309001603 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309001604 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 657309001605 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 657309001606 amidase catalytic site [active] 657309001607 Zn binding residues [ion binding]; other site 657309001608 substrate binding site [chemical binding]; other site 657309001609 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309001610 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309001611 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309001612 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309001613 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 657309001614 active site 657309001615 metal binding site [ion binding]; metal-binding site 657309001616 interdomain interaction site; other site 657309001617 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 657309001618 AAA domain; Region: AAA_25; pfam13481 657309001619 Walker A motif; other site 657309001620 ATP binding site [chemical binding]; other site 657309001621 Walker B motif; other site 657309001622 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 657309001623 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 657309001624 putative glycosyl transferase; Provisional; Region: PRK10073 657309001625 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 657309001626 active site 657309001627 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 657309001628 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309001629 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 657309001630 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657309001631 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 657309001632 active site 657309001633 Sulfatase; Region: Sulfatase; cl17466 657309001634 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 657309001635 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 657309001636 DXD motif; other site 657309001637 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 657309001638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309001639 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 657309001640 dimer interface [polypeptide binding]; other site 657309001641 phosphorylation site [posttranslational modification] 657309001642 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 657309001643 ATP binding site [chemical binding]; other site 657309001644 Mg2+ binding site [ion binding]; other site 657309001645 G-X-G motif; other site 657309001646 Response regulator receiver domain; Region: Response_reg; pfam00072 657309001647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309001648 active site 657309001649 phosphorylation site [posttranslational modification] 657309001650 intermolecular recognition site; other site 657309001651 dimerization interface [polypeptide binding]; other site 657309001652 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 657309001653 putative catalytic site [active] 657309001654 putative metal binding site [ion binding]; other site 657309001655 putative phosphate binding site [ion binding]; other site 657309001656 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309001657 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 657309001658 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309001659 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 657309001660 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309001661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309001662 ABC transporter; Region: ABC_tran_2; pfam12848 657309001663 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309001664 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 657309001665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309001666 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 657309001667 dimer interface [polypeptide binding]; other site 657309001668 phosphorylation site [posttranslational modification] 657309001669 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 657309001670 ATP binding site [chemical binding]; other site 657309001671 Mg2+ binding site [ion binding]; other site 657309001672 G-X-G motif; other site 657309001673 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657309001674 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309001675 sialate O-acetylesterase_like family of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like1; cd01827 657309001676 active site 657309001677 catalytic triad [active] 657309001678 oxyanion hole [active] 657309001679 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309001680 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 657309001681 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309001682 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 657309001683 ligand binding site [chemical binding]; other site 657309001684 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 657309001685 Transglycosylase; Region: Transgly; cl17702 657309001686 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309001687 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309001688 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 657309001689 DNA binding residues [nucleotide binding] 657309001690 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 657309001691 Peptidase family M48; Region: Peptidase_M48; cl12018 657309001692 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 657309001693 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 657309001694 active site 657309001695 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 657309001696 homodimer interface [polypeptide binding]; other site 657309001697 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309001698 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 657309001699 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 657309001700 putative ligand binding site [chemical binding]; other site 657309001701 putative NAD binding site [chemical binding]; other site 657309001702 catalytic site [active] 657309001703 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 657309001704 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 657309001705 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 657309001706 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 657309001707 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 657309001708 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 657309001709 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309001710 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309001711 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309001712 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309001713 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657309001714 Walker A/P-loop; other site 657309001715 ATP binding site [chemical binding]; other site 657309001716 Q-loop/lid; other site 657309001717 ABC transporter signature motif; other site 657309001718 Walker B; other site 657309001719 D-loop; other site 657309001720 H-loop/switch region; other site 657309001721 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657309001722 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657309001723 FtsX-like permease family; Region: FtsX; pfam02687 657309001724 Histidine kinase; Region: His_kinase; pfam06580 657309001725 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657309001726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309001727 active site 657309001728 phosphorylation site [posttranslational modification] 657309001729 intermolecular recognition site; other site 657309001730 dimerization interface [polypeptide binding]; other site 657309001731 LytTr DNA-binding domain; Region: LytTR; smart00850 657309001732 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 657309001733 active site 657309001734 Int/Topo IB signature motif; other site 657309001735 DNA binding site [nucleotide binding] 657309001736 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657309001737 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 657309001738 active site 657309001739 metal binding site [ion binding]; metal-binding site 657309001740 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 657309001741 putative active site [active] 657309001742 putative NTP binding site [chemical binding]; other site 657309001743 putative nucleic acid binding site [nucleotide binding]; other site 657309001744 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 657309001745 non-specific DNA binding site [nucleotide binding]; other site 657309001746 salt bridge; other site 657309001747 sequence-specific DNA binding site [nucleotide binding]; other site 657309001748 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657309001749 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 657309001750 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309001751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309001752 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 657309001753 DNA binding residues [nucleotide binding] 657309001754 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 657309001755 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 657309001756 Phage portal protein; Region: Phage_portal; pfam04860 657309001757 Phage-related protein [Function unknown]; Region: COG4695; cl01923 657309001758 Phage terminase large subunit; Region: Terminase_3; cl12054 657309001759 Terminase small subunit; Region: Terminase_2; pfam03592 657309001760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309001761 active site 657309001762 extended (e) SDRs; Region: SDR_e; cd08946 657309001763 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 657309001764 NAD(P) binding site [chemical binding]; other site 657309001765 active site 657309001766 substrate binding site [chemical binding]; other site 657309001767 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 657309001768 ASC-1 homology domain, ASC-1-like subfamily. 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 an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 657309001769 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657309001770 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657309001771 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 657309001772 active site 657309001773 DNA binding site [nucleotide binding] 657309001774 Int/Topo IB signature motif; other site 657309001775 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u5; cd11542 657309001776 metal binding site [ion binding]; metal-binding site 657309001777 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 657309001778 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657309001779 Ligand Binding Site [chemical binding]; other site 657309001780 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 657309001781 ParB-like nuclease domain; Region: ParBc; pfam02195 657309001782 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 657309001783 HNH endonuclease; Region: HNH_3; pfam13392 657309001784 ParB-like nuclease domain; Region: ParB; smart00470 657309001785 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 657309001786 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 657309001787 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 657309001788 ATP binding site [chemical binding]; other site 657309001789 putative Mg++ binding site [ion binding]; other site 657309001790 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 657309001791 nucleotide binding region [chemical binding]; other site 657309001792 ATP-binding site [chemical binding]; other site 657309001793 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 657309001794 hypothetical protein; Provisional; Region: PRK09741 657309001795 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657309001796 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 657309001797 dimer interface [polypeptide binding]; other site 657309001798 ssDNA binding site [nucleotide binding]; other site 657309001799 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657309001800 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 657309001801 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 657309001802 non-specific DNA binding site [nucleotide binding]; other site 657309001803 salt bridge; other site 657309001804 sequence-specific DNA binding site [nucleotide binding]; other site 657309001805 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 657309001806 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 657309001807 putative active site [active] 657309001808 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 657309001809 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 657309001810 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 657309001811 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 657309001812 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 657309001813 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 657309001814 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 657309001815 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657309001816 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 657309001817 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 657309001818 NADP binding site [chemical binding]; other site 657309001819 active site 657309001820 putative substrate binding site [chemical binding]; other site 657309001821 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 657309001822 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309001823 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 657309001824 acyl-activating enzyme (AAE) consensus motif; other site 657309001825 putative AMP binding site [chemical binding]; other site 657309001826 putative active site [active] 657309001827 putative CoA binding site [chemical binding]; other site 657309001828 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657309001829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309001830 Coenzyme A binding pocket [chemical binding]; other site 657309001831 putative transporter; Validated; Region: PRK03818 657309001832 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 657309001833 TrkA-C domain; Region: TrkA_C; pfam02080 657309001834 TrkA-C domain; Region: TrkA_C; pfam02080 657309001835 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309001836 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 657309001837 MoxR-like ATPases [General function prediction only]; Region: COG0714 657309001838 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 657309001839 Walker A motif; other site 657309001840 ATP binding site [chemical binding]; other site 657309001841 Walker B motif; other site 657309001842 arginine finger; other site 657309001843 hypothetical protein; Provisional; Region: yieM; PRK10997 657309001844 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 657309001845 metal ion-dependent adhesion site (MIDAS); other site 657309001846 Domain of Unknown Function with PDB structure; Region: DUF3845; pfam12956 657309001847 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309001848 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 657309001849 ligand binding site [chemical binding]; other site 657309001850 flexible hinge region; other site 657309001851 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309001852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309001853 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 657309001854 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 657309001855 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309001856 active site 657309001857 metal binding site [ion binding]; metal-binding site 657309001858 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 657309001859 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 657309001860 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 657309001861 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 657309001862 RNA binding site [nucleotide binding]; other site 657309001863 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657309001864 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309001865 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309001866 VirE N-terminal domain; Region: VirE_N; pfam08800 657309001867 Virulence-associated protein E; Region: VirE; pfam05272 657309001868 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309001869 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309001870 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 657309001871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309001872 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309001873 ABC transporter; Region: ABC_tran_2; pfam12848 657309001874 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309001875 GrpE; Region: GrpE; pfam01025 657309001876 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 657309001877 dimer interface [polypeptide binding]; other site 657309001878 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 657309001879 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 657309001880 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309001881 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309001882 SusD family; Region: SusD; pfam07980 657309001883 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309001884 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309001885 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309001886 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309001887 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309001888 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309001889 active site 657309001890 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309001891 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309001892 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309001893 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309001894 active site 657309001895 Fn3 associated; Region: Fn3_assoc; pfam13287 657309001896 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309001897 sugar binding site [chemical binding]; other site 657309001898 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 657309001899 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309001900 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309001901 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309001902 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 657309001903 catalytic site [active] 657309001904 BNR repeat-like domain; Region: BNR_2; pfam13088 657309001905 Asp-box motif; other site 657309001906 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 657309001907 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 657309001908 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657309001909 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657309001910 potassium-transporting ATPase subunit C; Provisional; Region: PRK14002 657309001911 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 657309001912 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 657309001913 Ligand Binding Site [chemical binding]; other site 657309001914 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 657309001915 dimerization interface [polypeptide binding]; other site 657309001916 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 657309001917 PAS domain; Region: PAS; smart00091 657309001918 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 657309001919 dimer interface [polypeptide binding]; other site 657309001920 phosphorylation site [posttranslational modification] 657309001921 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 657309001922 ATP binding site [chemical binding]; other site 657309001923 Mg2+ binding site [ion binding]; other site 657309001924 G-X-G motif; other site 657309001925 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657309001926 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 657309001927 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 657309001928 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 657309001929 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657309001930 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 657309001931 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 657309001932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309001933 Walker A/P-loop; other site 657309001934 ATP binding site [chemical binding]; other site 657309001935 Q-loop/lid; other site 657309001936 ABC transporter signature motif; other site 657309001937 Walker B; other site 657309001938 D-loop; other site 657309001939 H-loop/switch region; other site 657309001940 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309001941 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309001942 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 657309001943 active site 657309001944 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 657309001945 active site 657309001946 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309001947 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309001948 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309001949 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309001950 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309001951 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309001952 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 657309001953 FecR protein; Region: FecR; pfam04773 657309001954 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309001955 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309001956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309001957 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 657309001958 DNA binding residues [nucleotide binding] 657309001959 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657309001960 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 657309001961 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 657309001962 ATP Binding subdomain [chemical binding]; other site 657309001963 Ligand Binding sites [chemical binding]; other site 657309001964 Dimerization subdomain; other site 657309001965 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309001966 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 657309001967 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 657309001968 active site 657309001969 DNA binding site [nucleotide binding] 657309001970 Int/Topo IB signature motif; other site 657309001971 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 657309001972 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 657309001973 multiple promoter invertase; Provisional; Region: mpi; PRK13413 657309001974 catalytic residues [active] 657309001975 catalytic nucleophile [active] 657309001976 Presynaptic Site I dimer interface [polypeptide binding]; other site 657309001977 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 657309001978 Synaptic Flat tetramer interface [polypeptide binding]; other site 657309001979 Synaptic Site I dimer interface [polypeptide binding]; other site 657309001980 DNA binding site [nucleotide binding] 657309001981 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657309001982 TPR repeat; Region: TPR_11; pfam13414 657309001983 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 657309001984 TPR motif; other site 657309001985 TPR repeat; Region: TPR_11; pfam13414 657309001986 binding surface 657309001987 TPR repeat; Region: TPR_11; pfam13414 657309001988 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 657309001989 binding surface 657309001990 TPR motif; other site 657309001991 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 657309001992 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 657309001993 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 657309001994 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 657309001995 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 657309001996 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 657309001997 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 657309001998 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 657309001999 dimerization interface [polypeptide binding]; other site 657309002000 active site 657309002001 aspartate aminotransferase; Provisional; Region: PRK05764 657309002002 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 657309002003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309002004 homodimer interface [polypeptide binding]; other site 657309002005 catalytic residue [active] 657309002006 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657309002007 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657309002008 homoserine O-succinyltransferase; Provisional; Region: PRK05368 657309002009 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 657309002010 proposed active site lysine [active] 657309002011 conserved cys residue [active] 657309002012 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657309002013 Peptidase family U32; Region: Peptidase_U32; pfam01136 657309002014 Collagenase; Region: DUF3656; pfam12392 657309002015 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657309002016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 657309002017 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309002018 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 657309002019 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657309002020 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 657309002021 DNA binding residues [nucleotide binding] 657309002022 dimerization interface [polypeptide binding]; other site 657309002023 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657309002024 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657309002025 DNA repair protein RadA; Provisional; Region: PRK11823 657309002026 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 657309002027 Walker A motif; other site 657309002028 ATP binding site [chemical binding]; other site 657309002029 Walker B motif; other site 657309002030 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657309002031 AAA domain; Region: AAA_14; pfam13173 657309002032 AAA domain; Region: AAA_22; pfam13401 657309002033 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309002034 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 657309002035 active site 657309002036 homodimer interface [polypeptide binding]; other site 657309002037 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 657309002038 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 657309002039 putative catalytic residues [active] 657309002040 putative nucleotide binding site [chemical binding]; other site 657309002041 putative aspartate binding site [chemical binding]; other site 657309002042 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 657309002043 dimer interface [polypeptide binding]; other site 657309002044 putative threonine allosteric regulatory site; other site 657309002045 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 657309002046 putative threonine allosteric regulatory site; other site 657309002047 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657309002048 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 657309002049 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 657309002050 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 657309002051 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 657309002052 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 657309002053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309002054 catalytic residue [active] 657309002055 Thiamine pyrophosphokinase; Region: TPK; cd07995 657309002056 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 657309002057 active site 657309002058 dimerization interface [polypeptide binding]; other site 657309002059 thiamine binding site [chemical binding]; other site 657309002060 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 657309002061 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657309002062 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657309002063 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657309002064 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 657309002065 homodimer interface [polypeptide binding]; other site 657309002066 substrate-cofactor binding pocket; other site 657309002067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309002068 catalytic residue [active] 657309002069 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657309002070 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 657309002071 putative DNA binding site [nucleotide binding]; other site 657309002072 putative Zn2+ binding site [ion binding]; other site 657309002073 AsnC family; Region: AsnC_trans_reg; pfam01037 657309002074 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657309002075 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 657309002076 trimer interface [polypeptide binding]; other site 657309002077 active site 657309002078 substrate binding site [chemical binding]; other site 657309002079 CoA binding site [chemical binding]; other site 657309002080 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657309002081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309002082 Coenzyme A binding pocket [chemical binding]; other site 657309002083 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657309002084 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657309002085 putative efflux protein, MATE family; Region: matE; TIGR00797 657309002086 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657309002087 MarR family; Region: MarR_2; pfam12802 657309002088 MarR family; Region: MarR_2; cl17246 657309002089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309002090 Coenzyme A binding pocket [chemical binding]; other site 657309002091 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 657309002092 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 657309002093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309002094 homodimer interface [polypeptide binding]; other site 657309002095 catalytic residue [active] 657309002096 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 657309002097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657309002098 DNA-binding site [nucleotide binding]; DNA binding site 657309002099 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 657309002100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309002101 homodimer interface [polypeptide binding]; other site 657309002102 catalytic residue [active] 657309002103 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 657309002104 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 657309002105 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309002106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309002107 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 657309002108 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 657309002109 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 657309002110 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657309002111 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657309002112 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 657309002113 Ligand Binding Site [chemical binding]; other site 657309002114 Protein of unknown function (DUF419); Region: DUF419; pfam04237 657309002115 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 657309002116 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309002117 ligand binding site [chemical binding]; other site 657309002118 flexible hinge region; other site 657309002119 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 657309002120 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 657309002121 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 657309002122 active site 657309002123 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309002124 VirE N-terminal domain; Region: VirE_N; pfam08800 657309002125 Virulence-associated protein E; Region: VirE; pfam05272 657309002126 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309002127 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 657309002128 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 657309002129 DNA binding site [nucleotide binding] 657309002130 active site 657309002131 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309002132 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 657309002133 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 657309002134 DNA binding site [nucleotide binding] 657309002135 active site 657309002136 DJ-1 family protein; Region: not_thiJ; TIGR01383 657309002137 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 657309002138 conserved cys residue [active] 657309002139 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 657309002140 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309002141 SusD family; Region: SusD; pfam07980 657309002142 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309002143 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 657309002144 non-specific DNA binding site [nucleotide binding]; other site 657309002145 salt bridge; other site 657309002146 sequence-specific DNA binding site [nucleotide binding]; other site 657309002147 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309002148 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 657309002149 non-specific DNA binding site [nucleotide binding]; other site 657309002150 salt bridge; other site 657309002151 sequence-specific DNA binding site [nucleotide binding]; other site 657309002152 Urea transporter; Region: UT; pfam03253 657309002153 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657309002154 Domain of unknown function DUF20; Region: UPF0118; pfam01594 657309002155 thymidine kinase; Provisional; Region: PRK04296 657309002156 Predicted methyltransferases [General function prediction only]; Region: COG0313 657309002157 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 657309002158 putative SAM binding site [chemical binding]; other site 657309002159 putative homodimer interface [polypeptide binding]; other site 657309002160 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 657309002161 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 657309002162 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 657309002163 motif II; other site 657309002164 MarC family integral membrane protein; Region: MarC; pfam01914 657309002165 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309002166 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309002167 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 657309002168 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309002169 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 657309002170 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 657309002171 HflX GTPase family; Region: HflX; cd01878 657309002172 G1 box; other site 657309002173 GTP/Mg2+ binding site [chemical binding]; other site 657309002174 Switch I region; other site 657309002175 G2 box; other site 657309002176 G3 box; other site 657309002177 Switch II region; other site 657309002178 G4 box; other site 657309002179 G5 box; other site 657309002180 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 657309002181 putative trimer interface [polypeptide binding]; other site 657309002182 putative CoA binding site [chemical binding]; other site 657309002183 fumarate hydratase; Provisional; Region: PRK15389 657309002184 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 657309002185 Fumarase C-terminus; Region: Fumerase_C; pfam05683 657309002186 Pectic acid lyase; Region: Pec_lyase; pfam09492 657309002187 Outer membrane efflux protein; Region: OEP; pfam02321 657309002188 Outer membrane efflux protein; Region: OEP; pfam02321 657309002189 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309002190 Protein export membrane protein; Region: SecD_SecF; cl14618 657309002191 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309002192 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309002193 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309002194 GTPase RsgA; Reviewed; Region: PRK00098 657309002195 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 657309002196 RNA binding site [nucleotide binding]; other site 657309002197 homodimer interface [polypeptide binding]; other site 657309002198 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 657309002199 GTPase/Zn-binding domain interface [polypeptide binding]; other site 657309002200 GTP/Mg2+ binding site [chemical binding]; other site 657309002201 G4 box; other site 657309002202 G5 box; other site 657309002203 G1 box; other site 657309002204 Switch I region; other site 657309002205 G2 box; other site 657309002206 G3 box; other site 657309002207 Switch II region; other site 657309002208 ribosome recycling factor; Reviewed; Region: frr; PRK00083 657309002209 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 657309002210 hinge region; other site 657309002211 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 657309002212 EamA-like transporter family; Region: EamA; pfam00892 657309002213 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309002214 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309002215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309002216 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 657309002217 dimer interface [polypeptide binding]; other site 657309002218 phosphorylation site [posttranslational modification] 657309002219 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 657309002220 ATP binding site [chemical binding]; other site 657309002221 Mg2+ binding site [ion binding]; other site 657309002222 G-X-G motif; other site 657309002223 Response regulator receiver domain; Region: Response_reg; pfam00072 657309002224 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309002225 active site 657309002226 phosphorylation site [posttranslational modification] 657309002227 intermolecular recognition site; other site 657309002228 dimerization interface [polypeptide binding]; other site 657309002229 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309002230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309002231 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002232 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002233 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002234 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 657309002235 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309002236 SusD family; Region: SusD; pfam07980 657309002237 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309002238 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309002239 beta-D-glucuronidase; Provisional; Region: PRK10150 657309002240 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309002241 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309002242 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 657309002243 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 657309002244 putative nucleotide binding site [chemical binding]; other site 657309002245 uridine monophosphate binding site [chemical binding]; other site 657309002246 homohexameric interface [polypeptide binding]; other site 657309002247 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 657309002248 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 657309002249 TPR repeat; Region: TPR_11; pfam13414 657309002250 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 657309002251 binding surface 657309002252 TPR motif; other site 657309002253 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309002254 Pregnancy-associated plasma protein-A; Region: Peptidase_M43; cl17409 657309002255 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 657309002256 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 657309002257 Protein of unknown function (DUF419); Region: DUF419; pfam04237 657309002258 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 657309002259 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 657309002260 nucleoside/Zn binding site; other site 657309002261 dimer interface [polypeptide binding]; other site 657309002262 catalytic motif [active] 657309002263 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 657309002264 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 657309002265 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 657309002266 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 657309002267 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 657309002268 active site 657309002269 PHP Thumb interface [polypeptide binding]; other site 657309002270 metal binding site [ion binding]; metal-binding site 657309002271 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 657309002272 generic binding surface II; other site 657309002273 generic binding surface I; other site 657309002274 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 657309002275 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309002276 catalytic residues [active] 657309002277 RDD family; Region: RDD; pfam06271 657309002278 Integral membrane protein DUF95; Region: DUF95; pfam01944 657309002279 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 657309002280 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 657309002281 MoxR-like ATPases [General function prediction only]; Region: COG0714 657309002282 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 657309002283 Walker A motif; other site 657309002284 ATP binding site [chemical binding]; other site 657309002285 Walker B motif; other site 657309002286 arginine finger; other site 657309002287 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 657309002288 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 657309002289 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 657309002290 ABC-ATPase subunit interface; other site 657309002291 dimer interface [polypeptide binding]; other site 657309002292 putative PBP binding regions; other site 657309002293 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 657309002294 Peptidase family M28; Region: Peptidase_M28; pfam04389 657309002295 metal binding site [ion binding]; metal-binding site 657309002296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309002297 Coenzyme A binding pocket [chemical binding]; other site 657309002298 YoaP-like; Region: YoaP; pfam14268 657309002299 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309002300 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309002301 SusD family; Region: SusD; pfam07980 657309002302 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002303 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002304 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002305 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309002306 short chain dehydrogenase; Provisional; Region: PRK07024 657309002307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309002308 NAD(P) binding site [chemical binding]; other site 657309002309 active site 657309002310 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 657309002311 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 657309002312 hinge; other site 657309002313 active site 657309002314 AAA domain; Region: AAA_14; pfam13173 657309002315 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309002316 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 657309002317 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 657309002318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657309002319 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 657309002320 DNA binding residues [nucleotide binding] 657309002321 dimerization interface [polypeptide binding]; other site 657309002322 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 657309002323 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 657309002324 motif II; other site 657309002325 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 657309002326 Smr domain; Region: Smr; pfam01713 657309002327 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 657309002328 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 657309002329 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309002330 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002331 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309002332 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 657309002333 FecR protein; Region: FecR; pfam04773 657309002334 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309002335 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309002336 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 657309002337 DNA binding residues [nucleotide binding] 657309002338 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 657309002339 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 657309002340 FeS/SAM binding site; other site 657309002341 HemN C-terminal domain; Region: HemN_C; pfam06969 657309002342 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 657309002343 elongation factor G; Reviewed; Region: PRK12740 657309002344 G1 box; other site 657309002345 putative GEF interaction site [polypeptide binding]; other site 657309002346 GTP/Mg2+ binding site [chemical binding]; other site 657309002347 Switch I region; other site 657309002348 G2 box; other site 657309002349 G3 box; other site 657309002350 Switch II region; other site 657309002351 G4 box; other site 657309002352 G5 box; other site 657309002353 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 657309002354 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 657309002355 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 657309002356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309002357 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 657309002358 dimer interface [polypeptide binding]; other site 657309002359 phosphorylation site [posttranslational modification] 657309002360 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 657309002361 ATP binding site [chemical binding]; other site 657309002362 Mg2+ binding site [ion binding]; other site 657309002363 G-X-G motif; other site 657309002364 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657309002365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309002366 active site 657309002367 phosphorylation site [posttranslational modification] 657309002368 intermolecular recognition site; other site 657309002369 dimerization interface [polypeptide binding]; other site 657309002370 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 657309002371 DNA binding site [nucleotide binding] 657309002372 MarR family; Region: MarR_2; cl17246 657309002373 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657309002374 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 657309002375 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 657309002376 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 657309002377 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 657309002378 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 657309002379 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309002380 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309002381 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309002382 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309002383 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 657309002384 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 657309002385 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 657309002386 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309002387 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 657309002388 putative AMP binding site [chemical binding]; other site 657309002389 putative active site [active] 657309002390 acyl-activating enzyme (AAE) consensus motif; other site 657309002391 putative CoA binding site [chemical binding]; other site 657309002392 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 657309002393 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657309002394 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 657309002395 FeS/SAM binding site; other site 657309002396 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 657309002397 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 657309002398 putative acyl-acceptor binding pocket; other site 657309002399 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 657309002400 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657309002401 Probable Catalytic site; other site 657309002402 metal-binding site 657309002403 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 657309002404 active site 657309002405 dimer interfaces [polypeptide binding]; other site 657309002406 catalytic residues [active] 657309002407 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 657309002408 active site 657309002409 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 657309002410 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657309002411 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 657309002412 4-alpha-glucanotransferase; Region: PLN02950 657309002413 starch-binding site 2 [chemical binding]; other site 657309002414 starch-binding site 1 [chemical binding]; other site 657309002415 Disproportionating enzyme 2 (DPE2), N-terminal CBM20 (carbohydrate-binding module, family 20) domain, repeat 2. DPE2 is a transglucosidase that is essential for the cytosolic metabolism of maltose in plant leaves at night. Maltose is an intermediate on...; Region: CBM20_DPE2_repeat2; cd05816 657309002416 starch binding site 2 [chemical binding]; other site 657309002417 starch binding site 1 [chemical binding]; other site 657309002418 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 657309002419 DnaA N-terminal domain; Region: DnaA_N; pfam11638 657309002420 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 657309002421 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 657309002422 Walker A motif; other site 657309002423 ATP binding site [chemical binding]; other site 657309002424 Walker B motif; other site 657309002425 arginine finger; other site 657309002426 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 657309002427 DnaA box-binding interface [nucleotide binding]; other site 657309002428 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 657309002429 mce related protein; Region: MCE; pfam02470 657309002430 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657309002431 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 657309002432 active site 657309002433 metal binding site [ion binding]; metal-binding site 657309002434 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 657309002435 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 657309002436 binding surface 657309002437 TPR repeat; Region: TPR_11; pfam13414 657309002438 TPR motif; other site 657309002439 TPR repeat; Region: TPR_11; pfam13414 657309002440 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 657309002441 binding surface 657309002442 TPR motif; other site 657309002443 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657309002444 Protein of unknown function (DUF419); Region: DUF419; pfam04237 657309002445 Repair protein; Region: Repair_PSII; pfam04536 657309002446 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309002447 VirE N-terminal domain; Region: VirE_N; pfam08800 657309002448 Virulence-associated protein E; Region: VirE; pfam05272 657309002449 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309002450 BRO family, N-terminal domain; Region: Bro-N; smart01040 657309002451 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 657309002452 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 657309002453 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 657309002454 ligand binding site [chemical binding]; other site 657309002455 active site 657309002456 UGI interface [polypeptide binding]; other site 657309002457 catalytic site [active] 657309002458 asparagine synthetase AsnA; Provisional; Region: PRK05425 657309002459 motif 1; other site 657309002460 dimer interface [polypeptide binding]; other site 657309002461 active site 657309002462 motif 2; other site 657309002463 motif 3; other site 657309002464 bifunctional fucokinase/L-fucose-1-P-guanylyltransferase; Provisional; Region: fkp; PRK13412 657309002465 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657309002466 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657309002467 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 657309002468 motif II; other site 657309002469 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 657309002470 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 657309002471 active site 657309002472 dimer interface [polypeptide binding]; other site 657309002473 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 657309002474 dimer interface [polypeptide binding]; other site 657309002475 active site 657309002476 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 657309002477 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657309002478 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 657309002479 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 657309002480 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 657309002481 dimer interface [polypeptide binding]; other site 657309002482 putative anticodon binding site; other site 657309002483 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 657309002484 motif 1; other site 657309002485 active site 657309002486 motif 2; other site 657309002487 motif 3; other site 657309002488 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 657309002489 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309002490 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657309002491 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309002492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309002493 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309002494 Outer membrane efflux protein; Region: OEP; pfam02321 657309002495 Outer membrane efflux protein; Region: OEP; pfam02321 657309002496 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309002497 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309002498 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 657309002499 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 657309002500 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 657309002501 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309002502 Helix-turn-helix domain; Region: HTH_31; pfam13560 657309002503 non-specific DNA binding site [nucleotide binding]; other site 657309002504 salt bridge; other site 657309002505 sequence-specific DNA binding site [nucleotide binding]; other site 657309002506 HipA N-terminal domain; Region: Couple_hipA; cl11853 657309002507 HipA-like N-terminal domain; Region: HipA_N; pfam07805 657309002508 HipA-like C-terminal domain; Region: HipA_C; pfam07804 657309002509 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 657309002510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657309002511 DNA-binding site [nucleotide binding]; DNA binding site 657309002512 UTRA domain; Region: UTRA; pfam07702 657309002513 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 657309002514 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 657309002515 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657309002516 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657309002517 nucleotide binding site [chemical binding]; other site 657309002518 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002519 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002520 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002521 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309002522 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309002523 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309002524 SusD family; Region: SusD; pfam07980 657309002525 SusE outer membrane protein; Region: SusE; pfam14292 657309002526 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 657309002527 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 657309002528 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309002529 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309002530 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657309002531 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657309002532 Walker A/P-loop; other site 657309002533 ATP binding site [chemical binding]; other site 657309002534 Q-loop/lid; other site 657309002535 ABC transporter signature motif; other site 657309002536 Walker B; other site 657309002537 D-loop; other site 657309002538 H-loop/switch region; other site 657309002539 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 657309002540 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 657309002541 ABC-ATPase subunit interface; other site 657309002542 dimer interface [polypeptide binding]; other site 657309002543 putative PBP binding regions; other site 657309002544 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 657309002545 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 657309002546 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 657309002547 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657309002548 putative transporter; Validated; Region: PRK03818 657309002549 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309002550 TrkA-C domain; Region: TrkA_C; pfam02080 657309002551 TrkA-C domain; Region: TrkA_C; pfam02080 657309002552 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 657309002553 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 657309002554 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 657309002555 heterodimer interface [polypeptide binding]; other site 657309002556 substrate interaction site [chemical binding]; other site 657309002557 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 657309002558 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 657309002559 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 657309002560 active site 657309002561 substrate binding site [chemical binding]; other site 657309002562 coenzyme B12 binding site [chemical binding]; other site 657309002563 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 657309002564 B12 binding site [chemical binding]; other site 657309002565 cobalt ligand [ion binding]; other site 657309002566 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309002567 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309002568 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 657309002569 DNA binding residues [nucleotide binding] 657309002570 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309002571 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002572 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002573 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002574 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 657309002575 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309002576 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309002577 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309002578 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309002579 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657309002580 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 657309002581 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309002582 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309002583 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309002584 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309002585 DNA topoisomerase III; Provisional; Region: PRK07726 657309002586 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 657309002587 active site 657309002588 putative interdomain interaction site [polypeptide binding]; other site 657309002589 putative metal-binding site [ion binding]; other site 657309002590 putative nucleotide binding site [chemical binding]; other site 657309002591 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 657309002592 domain I; other site 657309002593 phosphate binding site [ion binding]; other site 657309002594 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 657309002595 domain II; other site 657309002596 domain III; other site 657309002597 nucleotide binding site [chemical binding]; other site 657309002598 DNA binding groove [nucleotide binding] 657309002599 catalytic site [active] 657309002600 domain IV; other site 657309002601 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 657309002602 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 657309002603 hypothetical protein; Provisional; Region: PRK08201 657309002604 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 657309002605 metal binding site [ion binding]; metal-binding site 657309002606 putative dimer interface [polypeptide binding]; other site 657309002607 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 657309002608 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 657309002609 Tetramer interface [polypeptide binding]; other site 657309002610 active site 657309002611 FMN-binding site [chemical binding]; other site 657309002612 Lipocalin-like domain; Region: Lipocalin_6; pfam13944 657309002613 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309002614 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 657309002615 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 657309002616 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657309002617 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 657309002618 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657309002619 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657309002620 PYR/PP interface [polypeptide binding]; other site 657309002621 dimer interface [polypeptide binding]; other site 657309002622 TPP binding site [chemical binding]; other site 657309002623 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657309002624 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 657309002625 TPP-binding site [chemical binding]; other site 657309002626 dimer interface [polypeptide binding]; other site 657309002627 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 657309002628 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657309002629 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657309002630 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 657309002631 active site 657309002632 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 657309002633 active site 2 [active] 657309002634 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 657309002635 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 657309002636 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 657309002637 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 657309002638 AAA domain; Region: AAA_11; pfam13086 657309002639 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 657309002640 ATP binding site [chemical binding]; other site 657309002641 AAA domain; Region: AAA_30; pfam13604 657309002642 AAA domain; Region: AAA_12; pfam13087 657309002643 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 657309002644 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 657309002645 substrate binding site [chemical binding]; other site 657309002646 ligand binding site [chemical binding]; other site 657309002647 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 657309002648 substrate binding site [chemical binding]; other site 657309002649 isocitrate dehydrogenase; Validated; Region: PRK06451 657309002650 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 657309002651 citrate synthase; Provisional; Region: PRK14032 657309002652 Citrate synthase; Region: Citrate_synt; pfam00285 657309002653 oxalacetate binding site [chemical binding]; other site 657309002654 citrylCoA binding site [chemical binding]; other site 657309002655 coenzyme A binding site [chemical binding]; other site 657309002656 catalytic triad [active] 657309002657 3-oxo-5-alpha-steroid 4-dehydrogenase; Region: Steroid_dh; cl17474 657309002658 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 657309002659 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 657309002660 active site 657309002661 FMN binding site [chemical binding]; other site 657309002662 substrate binding site [chemical binding]; other site 657309002663 putative catalytic residue [active] 657309002664 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 657309002665 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 657309002666 putative NAD(P) binding site [chemical binding]; other site 657309002667 active site 657309002668 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002669 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309002670 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 657309002671 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 657309002672 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 657309002673 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 657309002674 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 657309002675 6-phosphofructokinase; Provisional; Region: PRK03202 657309002676 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657309002677 active site 657309002678 ADP/pyrophosphate binding site [chemical binding]; other site 657309002679 dimerization interface [polypeptide binding]; other site 657309002680 allosteric effector site; other site 657309002681 fructose-1,6-bisphosphate binding site; other site 657309002682 LytB protein; Region: LYTB; cl00507 657309002683 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 657309002684 cytidylate kinase; Provisional; Region: cmk; PRK00023 657309002685 AAA domain; Region: AAA_17; pfam13207 657309002686 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 657309002687 CMP-binding site; other site 657309002688 The sites determining sugar specificity; other site 657309002689 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 657309002690 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309002691 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 657309002692 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 657309002693 substrate binding pocket [chemical binding]; other site 657309002694 chain length determination region; other site 657309002695 substrate-Mg2+ binding site; other site 657309002696 catalytic residues [active] 657309002697 aspartate-rich region 1; other site 657309002698 active site lid residues [active] 657309002699 aspartate-rich region 2; other site 657309002700 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 657309002701 active site 657309002702 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 657309002703 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657309002704 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 657309002705 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657309002706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309002707 Coenzyme A binding pocket [chemical binding]; other site 657309002708 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 657309002709 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 657309002710 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 657309002711 AsnC family; Region: AsnC_trans_reg; pfam01037 657309002712 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 657309002713 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 657309002714 folate binding site [chemical binding]; other site 657309002715 NADP+ binding site [chemical binding]; other site 657309002716 thymidylate synthase; Reviewed; Region: thyA; PRK01827 657309002717 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 657309002718 dimerization interface [polypeptide binding]; other site 657309002719 active site 657309002720 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 657309002721 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 657309002722 putative active site [active] 657309002723 catalytic site [active] 657309002724 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 657309002725 putative active site [active] 657309002726 catalytic site [active] 657309002727 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657309002728 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309002729 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 657309002730 DNA binding residues [nucleotide binding] 657309002731 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 657309002732 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 657309002733 S-adenosylmethionine binding site [chemical binding]; other site 657309002734 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 657309002735 Outer membrane efflux protein; Region: OEP; pfam02321 657309002736 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 657309002737 Protein export membrane protein; Region: SecD_SecF; cl14618 657309002738 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309002739 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 657309002740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 657309002741 AAA domain; Region: AAA_33; pfam13671 657309002742 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657309002743 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309002744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309002745 ABC transporter; Region: ABC_tran_2; pfam12848 657309002746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309002747 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309002748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309002749 active site 657309002750 phosphorylation site [posttranslational modification] 657309002751 intermolecular recognition site; other site 657309002752 dimerization interface [polypeptide binding]; other site 657309002753 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309002754 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309002755 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002756 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002757 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 657309002758 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002759 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 657309002760 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657309002761 active site 657309002762 dimer interface [polypeptide binding]; other site 657309002763 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 657309002764 RuvA N terminal domain; Region: RuvA_N; pfam01330 657309002765 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 657309002766 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 657309002767 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 657309002768 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 657309002769 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 657309002770 active site 657309002771 NTP binding site [chemical binding]; other site 657309002772 metal binding triad [ion binding]; metal-binding site 657309002773 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 657309002774 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657309002775 Zn2+ binding site [ion binding]; other site 657309002776 Mg2+ binding site [ion binding]; other site 657309002777 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309002778 Sulfatase; Region: Sulfatase; pfam00884 657309002779 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657309002780 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657309002781 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 657309002782 active site 657309002783 glutamate dehydrogenase; Provisional; Region: PRK14030 657309002784 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657309002785 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657309002786 NAD(P) binding site [chemical binding]; other site 657309002787 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 657309002788 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309002789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309002790 AAA domain; Region: AAA_21; pfam13304 657309002791 Walker A/P-loop; other site 657309002792 ATP binding site [chemical binding]; other site 657309002793 TIGR02646 family protein; Region: TIGR02646 657309002794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309002795 intermolecular recognition site; other site 657309002796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 657309002797 active site 657309002798 phosphorylation site [posttranslational modification] 657309002799 intermolecular recognition site; other site 657309002800 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657309002801 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309002802 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 657309002803 glutamate dehydrogenase; Provisional; Region: PRK14031 657309002804 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657309002805 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657309002806 NAD(P) binding site [chemical binding]; other site 657309002807 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 657309002808 Malic enzyme, N-terminal domain; Region: malic; pfam00390 657309002809 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 657309002810 putative NAD(P) binding site [chemical binding]; other site 657309002811 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 657309002812 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309002813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309002814 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 657309002815 DNA binding residues [nucleotide binding] 657309002816 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309002817 FecR protein; Region: FecR; pfam04773 657309002818 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309002819 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002820 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002821 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002822 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309002823 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 657309002824 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309002825 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 657309002826 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 657309002827 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309002828 active site 657309002829 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657309002830 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309002831 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309002832 active site 657309002833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 657309002834 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309002835 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309002836 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309002837 active site 657309002838 metal binding site [ion binding]; metal-binding site 657309002839 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657309002840 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657309002841 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657309002842 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309002843 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309002844 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309002845 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309002846 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309002847 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309002848 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 657309002849 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657309002850 LabA_like proteins; Region: LabA_like; cd06167 657309002851 putative metal binding site [ion binding]; other site 657309002852 Uncharacterized conserved protein [Function unknown]; Region: COG1432 657309002853 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 657309002854 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 657309002855 amidase catalytic site [active] 657309002856 Zn binding residues [ion binding]; other site 657309002857 substrate binding site [chemical binding]; other site 657309002858 NUMOD4 motif; Region: NUMOD4; pfam07463 657309002859 HNH endonuclease; Region: HNH_3; pfam13392 657309002860 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 657309002861 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309002862 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309002863 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309002864 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309002865 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 657309002866 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309002867 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309002868 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309002869 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657309002870 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 657309002871 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 657309002872 ATP cone domain; Region: ATP-cone; pfam03477 657309002873 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657309002874 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657309002875 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 657309002876 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309002877 putative substrate translocation pore; other site 657309002878 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 657309002879 RIP metalloprotease RseP; Region: TIGR00054 657309002880 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 657309002881 active site 657309002882 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 657309002883 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 657309002884 putative substrate binding region [chemical binding]; other site 657309002885 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 657309002886 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 657309002887 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 657309002888 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 657309002889 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657309002890 Peptidase family M23; Region: Peptidase_M23; pfam01551 657309002891 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 657309002892 RimM N-terminal domain; Region: RimM; pfam01782 657309002893 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 657309002894 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 657309002895 hinge; other site 657309002896 active site 657309002897 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 657309002898 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657309002899 Glycoprotease family; Region: Peptidase_M22; pfam00814 657309002900 hypothetical protein; Provisional; Region: PRK11820 657309002901 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 657309002902 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 657309002903 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 657309002904 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 657309002905 catalytic site [active] 657309002906 G-X2-G-X-G-K; other site 657309002907 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 657309002908 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 657309002909 active site 657309002910 (T/H)XGH motif; other site 657309002911 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 657309002912 Walker A motif; other site 657309002913 ATP binding site [chemical binding]; other site 657309002914 Walker B motif; other site 657309002915 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309002916 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 657309002917 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309002918 putative active site [active] 657309002919 putative metal binding site [ion binding]; other site 657309002920 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 657309002921 UbiA prenyltransferase family; Region: UbiA; pfam01040 657309002922 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 657309002923 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 657309002924 NAD binding site [chemical binding]; other site 657309002925 substrate binding site [chemical binding]; other site 657309002926 homodimer interface [polypeptide binding]; other site 657309002927 active site 657309002928 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 657309002929 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 657309002930 substrate binding site; other site 657309002931 tetramer interface; other site 657309002932 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657309002933 active site 657309002934 metal binding site [ion binding]; metal-binding site 657309002935 homotetramer interface [polypeptide binding]; other site 657309002936 polyphosphate kinase; Provisional; Region: PRK05443 657309002937 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 657309002938 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 657309002939 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 657309002940 domain interface [polypeptide binding]; other site 657309002941 active site 657309002942 catalytic site [active] 657309002943 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 657309002944 domain interface [polypeptide binding]; other site 657309002945 active site 657309002946 catalytic site [active] 657309002947 Phosphate transporter family; Region: PHO4; pfam01384 657309002948 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309002949 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 657309002950 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 657309002951 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 657309002952 active site 657309002953 Int/Topo IB signature motif; other site 657309002954 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 657309002955 Receptor L domain; Region: Recep_L_domain; pfam01030 657309002956 Uncharacterized conserved protein [Function unknown]; Region: COG3391 657309002957 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 657309002958 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 657309002959 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 657309002960 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 657309002961 putative ligand binding site [chemical binding]; other site 657309002962 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 657309002963 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 657309002964 ABC-ATPase subunit interface; other site 657309002965 dimer interface [polypeptide binding]; other site 657309002966 putative PBP binding regions; other site 657309002967 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 657309002968 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 657309002969 Walker A/P-loop; other site 657309002970 ATP binding site [chemical binding]; other site 657309002971 Q-loop/lid; other site 657309002972 ABC transporter signature motif; other site 657309002973 Walker B; other site 657309002974 D-loop; other site 657309002975 H-loop/switch region; other site 657309002976 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 657309002977 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309002978 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309002979 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 657309002980 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 657309002981 P-loop; other site 657309002982 Magnesium ion binding site [ion binding]; other site 657309002983 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309002984 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309002985 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657309002986 Toprim-like; Region: Toprim_2; pfam13155 657309002987 active site 657309002988 metal binding site [ion binding]; metal-binding site 657309002989 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 657309002990 Anticodon binding domain of tRNAs; Region: HGTP_anticodon2; pfam12745 657309002991 HEAT repeats; Region: HEAT_2; pfam13646 657309002992 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 657309002993 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 657309002994 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 657309002995 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309002996 Int/Topo IB signature motif; other site 657309002997 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 657309002998 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309002999 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657309003000 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 657309003001 homodimer interface [polypeptide binding]; other site 657309003002 substrate-cofactor binding pocket; other site 657309003003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309003004 catalytic residue [active] 657309003005 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657309003006 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 657309003007 active site 657309003008 metal binding site [ion binding]; metal-binding site 657309003009 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 657309003010 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657309003011 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 657309003012 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 657309003013 carboxyltransferase (CT) interaction site; other site 657309003014 biotinylation site [posttranslational modification]; other site 657309003015 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 657309003016 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657309003017 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657309003018 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 657309003019 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 657309003020 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309003021 catalytic residues [active] 657309003022 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 657309003023 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 657309003024 active site 657309003025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 657309003026 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 657309003027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309003028 NAD(P) binding site [chemical binding]; other site 657309003029 active site 657309003030 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 657309003031 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 657309003032 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309003033 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309003034 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 657309003035 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657309003036 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309003037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309003038 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 657309003039 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 657309003040 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 657309003041 Walker A motif; other site 657309003042 ATP binding site [chemical binding]; other site 657309003043 Walker B motif; other site 657309003044 arginine finger; other site 657309003045 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309003046 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309003047 antheraxanthin epoxidase/zeaxanthin epoxidase; Region: PLN02927 657309003048 AAA domain; Region: AAA_14; pfam13173 657309003049 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657309003050 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309003051 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 657309003052 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657309003053 dimer interface [polypeptide binding]; other site 657309003054 PYR/PP interface [polypeptide binding]; other site 657309003055 TPP binding site [chemical binding]; other site 657309003056 substrate binding site [chemical binding]; other site 657309003057 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657309003058 Domain of unknown function; Region: EKR; pfam10371 657309003059 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657309003060 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 657309003061 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 657309003062 TPP-binding site [chemical binding]; other site 657309003063 dimer interface [polypeptide binding]; other site 657309003064 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 657309003065 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 657309003066 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 657309003067 dimer interface [polypeptide binding]; other site 657309003068 conserved gate region; other site 657309003069 putative PBP binding loops; other site 657309003070 ABC-ATPase subunit interface; other site 657309003071 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 657309003072 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 657309003073 Walker A/P-loop; other site 657309003074 ATP binding site [chemical binding]; other site 657309003075 Q-loop/lid; other site 657309003076 ABC transporter signature motif; other site 657309003077 Walker B; other site 657309003078 D-loop; other site 657309003079 H-loop/switch region; other site 657309003080 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 657309003081 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 657309003082 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 657309003083 DNA binding site [nucleotide binding] 657309003084 active site 657309003085 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 657309003086 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 657309003087 putative ligand binding site [chemical binding]; other site 657309003088 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309003089 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 657309003090 dimer interface [polypeptide binding]; other site 657309003091 phosphorylation site [posttranslational modification] 657309003092 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 657309003093 ATP binding site [chemical binding]; other site 657309003094 Mg2+ binding site [ion binding]; other site 657309003095 G-X-G motif; other site 657309003096 Response regulator receiver domain; Region: Response_reg; pfam00072 657309003097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309003098 active site 657309003099 phosphorylation site [posttranslational modification] 657309003100 intermolecular recognition site; other site 657309003101 dimerization interface [polypeptide binding]; other site 657309003102 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309003103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309003104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 657309003105 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657309003106 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 657309003107 putative substrate binding site [chemical binding]; other site 657309003108 putative ATP binding site [chemical binding]; other site 657309003109 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 657309003110 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 657309003111 putative substrate translocation pore; other site 657309003112 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 657309003113 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 657309003114 substrate binding [chemical binding]; other site 657309003115 active site 657309003116 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 657309003117 Right handed beta helix region; Region: Beta_helix; pfam13229 657309003118 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 657309003119 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 657309003120 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309003121 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309003122 SusD family; Region: SusD; pfam07980 657309003123 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309003124 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309003125 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309003126 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309003127 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309003128 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309003129 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 657309003130 active site 657309003131 catalytic residues [active] 657309003132 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 657309003133 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 657309003134 substrate binding [chemical binding]; other site 657309003135 active site 657309003136 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 657309003137 WYL domain; Region: WYL; pfam13280 657309003138 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 657309003139 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 657309003140 active site 657309003141 nucleophile elbow; other site 657309003142 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657309003143 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657309003144 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657309003145 Ligand Binding Site [chemical binding]; other site 657309003146 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 657309003147 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309003148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309003149 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309003150 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309003151 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309003152 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 657309003153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309003154 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 657309003155 dimer interface [polypeptide binding]; other site 657309003156 phosphorylation site [posttranslational modification] 657309003157 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 657309003158 ATP binding site [chemical binding]; other site 657309003159 G-X-G motif; other site 657309003160 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 657309003161 dimer interface [polypeptide binding]; other site 657309003162 phosphorylation site [posttranslational modification] 657309003163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309003164 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 657309003165 dimer interface [polypeptide binding]; other site 657309003166 phosphorylation site [posttranslational modification] 657309003167 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 657309003168 ATP binding site [chemical binding]; other site 657309003169 Mg2+ binding site [ion binding]; other site 657309003170 G-X-G motif; other site 657309003171 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 657309003172 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 657309003173 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309003174 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657309003175 active site 657309003176 NTP binding site [chemical binding]; other site 657309003177 metal binding triad [ion binding]; metal-binding site 657309003178 antibiotic binding site [chemical binding]; other site 657309003179 HEPN domain; Region: HEPN; cl00824 657309003180 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 657309003181 Ligand binding site [chemical binding]; other site 657309003182 Electron transfer flavoprotein domain; Region: ETF; pfam01012 657309003183 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 657309003184 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 657309003185 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 657309003186 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 657309003187 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 657309003188 active site 657309003189 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 657309003190 Rhomboid family; Region: Rhomboid; pfam01694 657309003191 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 657309003192 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 657309003193 GAF domain; Region: GAF_2; pfam13185 657309003194 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 657309003195 chaperone protein DnaJ; Provisional; Region: PRK14299 657309003196 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 657309003197 HSP70 interaction site [polypeptide binding]; other site 657309003198 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657309003199 dimer interface [polypeptide binding]; other site 657309003200 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 657309003201 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 657309003202 Sulfatase; Region: Sulfatase; pfam00884 657309003203 Surface antigen; Region: Bac_surface_Ag; pfam01103 657309003204 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 657309003205 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 657309003206 tetramer interface [polypeptide binding]; other site 657309003207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309003208 catalytic residue [active] 657309003209 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 657309003210 pyruvate dehydrogenase; Provisional; Region: PRK06546 657309003211 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 657309003212 PYR/PP interface [polypeptide binding]; other site 657309003213 dimer interface [polypeptide binding]; other site 657309003214 tetramer interface [polypeptide binding]; other site 657309003215 TPP binding site [chemical binding]; other site 657309003216 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657309003217 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 657309003218 TPP-binding site [chemical binding]; other site 657309003219 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 657309003220 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 657309003221 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 657309003222 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309003223 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 657309003224 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657309003225 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 657309003226 active site 657309003227 catalytic residues [active] 657309003228 DNA binding site [nucleotide binding] 657309003229 Int/Topo IB signature motif; other site 657309003230 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 657309003231 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 657309003232 ring oligomerisation interface [polypeptide binding]; other site 657309003233 ATP/Mg binding site [chemical binding]; other site 657309003234 stacking interactions; other site 657309003235 hinge regions; other site 657309003236 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 657309003237 oligomerisation interface [polypeptide binding]; other site 657309003238 mobile loop; other site 657309003239 roof hairpin; other site 657309003240 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 657309003241 4Fe-4S binding domain; Region: Fer4; pfam00037 657309003242 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657309003243 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 657309003244 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 657309003245 FeS/SAM binding site; other site 657309003246 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 657309003247 Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]; Region: ThiH; COG1060 657309003248 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 657309003249 FeS/SAM binding site; other site 657309003250 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 657309003251 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 657309003252 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 657309003253 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 657309003254 G1 box; other site 657309003255 GTP/Mg2+ binding site [chemical binding]; other site 657309003256 Switch I region; other site 657309003257 G2 box; other site 657309003258 Switch II region; other site 657309003259 G3 box; other site 657309003260 G4 box; other site 657309003261 G5 box; other site 657309003262 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 657309003263 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 657309003264 dimer interface [polypeptide binding]; other site 657309003265 motif 1; other site 657309003266 active site 657309003267 motif 2; other site 657309003268 motif 3; other site 657309003269 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 657309003270 anticodon binding site; other site 657309003271 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 657309003272 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 657309003273 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 657309003274 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657309003275 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 657309003276 GDP-binding site [chemical binding]; other site 657309003277 ACT binding site; other site 657309003278 IMP binding site; other site 657309003279 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657309003280 metal binding site 2 [ion binding]; metal-binding site 657309003281 putative DNA binding helix; other site 657309003282 metal binding site 1 [ion binding]; metal-binding site 657309003283 dimer interface [polypeptide binding]; other site 657309003284 structural Zn2+ binding site [ion binding]; other site 657309003285 A new structural DNA glycosylase; Region: AlkD_like; cd06561 657309003286 active site 657309003287 Peptidase family M49; Region: Peptidase_M49; pfam03571 657309003288 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309003289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309003290 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 657309003291 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 657309003292 ATP binding site [chemical binding]; other site 657309003293 putative Mg++ binding site [ion binding]; other site 657309003294 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 657309003295 nucleotide binding region [chemical binding]; other site 657309003296 ATP-binding site [chemical binding]; other site 657309003297 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 657309003298 HRDC domain; Region: HRDC; pfam00570 657309003299 TPR repeat; Region: TPR_11; pfam13414 657309003300 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 657309003301 binding surface 657309003302 TPR motif; other site 657309003303 TPR repeat; Region: TPR_11; pfam13414 657309003304 Tetratricopeptide repeat; Region: TPR_9; pfam13371 657309003305 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 657309003306 binding surface 657309003307 TPR motif; other site 657309003308 TPR repeat; Region: TPR_11; pfam13414 657309003309 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657309003310 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 657309003311 dimer interface [polypeptide binding]; other site 657309003312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309003313 catalytic residue [active] 657309003314 Sulfatase; Region: Sulfatase; pfam00884 657309003315 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 657309003316 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 657309003317 active site 657309003318 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 657309003319 tartrate dehydrogenase; Region: TTC; TIGR02089 657309003320 (R)-citramalate synthase; Provisional; Region: PRK09389 657309003321 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 657309003322 active site 657309003323 catalytic residues [active] 657309003324 metal binding site [ion binding]; metal-binding site 657309003325 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 657309003326 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 657309003327 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 657309003328 substrate binding site [chemical binding]; other site 657309003329 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657309003330 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 657309003331 substrate binding site [chemical binding]; other site 657309003332 ligand binding site [chemical binding]; other site 657309003333 2-isopropylmalate synthase; Validated; Region: PRK00915 657309003334 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 657309003335 active site 657309003336 catalytic residues [active] 657309003337 metal binding site [ion binding]; metal-binding site 657309003338 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 657309003339 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309003340 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309003341 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309003342 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657309003343 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 657309003344 active site 657309003345 DNA binding site [nucleotide binding] 657309003346 Int/Topo IB signature motif; other site 657309003347 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 657309003348 active site 657309003349 catalytic residues [active] 657309003350 DNA binding site [nucleotide binding] 657309003351 Int/Topo IB signature motif; other site 657309003352 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 657309003353 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 657309003354 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309003355 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 657309003356 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 657309003357 active site 657309003358 nucleophile elbow; other site 657309003359 Surface antigen; Region: Bac_surface_Ag; pfam01103 657309003360 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309003361 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309003362 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309003363 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309003364 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 657309003365 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 657309003366 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 657309003367 active site 657309003368 ADP/pyrophosphate binding site [chemical binding]; other site 657309003369 dimerization interface [polypeptide binding]; other site 657309003370 allosteric effector site; other site 657309003371 fructose-1,6-bisphosphate binding site; other site 657309003372 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 657309003373 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 657309003374 active site 657309003375 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 657309003376 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 657309003377 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309003378 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657309003379 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 657309003380 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 657309003381 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 657309003382 E3 interaction surface; other site 657309003383 lipoyl attachment site [posttranslational modification]; other site 657309003384 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 657309003385 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 657309003386 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 657309003387 tetramer interface [polypeptide binding]; other site 657309003388 TPP-binding site [chemical binding]; other site 657309003389 heterodimer interface [polypeptide binding]; other site 657309003390 phosphorylation loop region [posttranslational modification] 657309003391 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 657309003392 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 657309003393 PYR/PP interface [polypeptide binding]; other site 657309003394 dimer interface [polypeptide binding]; other site 657309003395 TPP binding site [chemical binding]; other site 657309003396 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657309003397 flavodoxin FldA; Validated; Region: PRK09267 657309003398 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 657309003399 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 657309003400 S-adenosylmethionine binding site [chemical binding]; other site 657309003401 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309003402 Domain of unknown function DUF22; Region: DUF22; pfam01629 657309003403 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 657309003404 nucleoside/Zn binding site; other site 657309003405 dimer interface [polypeptide binding]; other site 657309003406 catalytic motif [active] 657309003407 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309003408 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309003409 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657309003410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657309003411 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 657309003412 substrate binding pocket [chemical binding]; other site 657309003413 membrane-bound complex binding site; other site 657309003414 hinge residues; other site 657309003415 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 657309003416 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 657309003417 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 657309003418 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 657309003419 TPP-binding site [chemical binding]; other site 657309003420 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 657309003421 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657309003422 dimer interface [polypeptide binding]; other site 657309003423 PYR/PP interface [polypeptide binding]; other site 657309003424 TPP binding site [chemical binding]; other site 657309003425 substrate binding site [chemical binding]; other site 657309003426 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657309003427 Ferredoxin [Energy production and conversion]; Region: COG1146 657309003428 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657309003429 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 657309003430 binding surface 657309003431 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309003432 TPR motif; other site 657309003433 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 657309003434 Protein of unknown function (DUF456); Region: DUF456; pfam04306 657309003435 Right handed beta helix region; Region: Beta_helix; pfam13229 657309003436 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657309003437 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657309003438 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 657309003439 active site 657309003440 homotrimer interface [polypeptide binding]; other site 657309003441 catalytic site [active] 657309003442 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 657309003443 putative transporter; Provisional; Region: PRK10484 657309003444 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 657309003445 Na binding site [ion binding]; other site 657309003446 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 657309003447 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 657309003448 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 657309003449 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 657309003450 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 657309003451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 657309003452 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 657309003453 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 657309003454 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 657309003455 putative N- and C-terminal domain interface [polypeptide binding]; other site 657309003456 putative active site [active] 657309003457 MgATP binding site [chemical binding]; other site 657309003458 catalytic site [active] 657309003459 metal binding site [ion binding]; metal-binding site 657309003460 putative carbohydrate binding site [chemical binding]; other site 657309003461 L-arabinose isomerase; Provisional; Region: PRK02929 657309003462 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 657309003463 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 657309003464 trimer interface [polypeptide binding]; other site 657309003465 putative substrate binding site [chemical binding]; other site 657309003466 putative metal binding site [ion binding]; other site 657309003467 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 657309003468 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 657309003469 intersubunit interface [polypeptide binding]; other site 657309003470 active site 657309003471 Zn2+ binding site [ion binding]; other site 657309003472 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 657309003473 nudix motif; other site 657309003474 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 657309003475 Na binding site [ion binding]; other site 657309003476 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657309003477 active site 657309003478 catalytic residues [active] 657309003479 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 657309003480 substrate binding site [chemical binding]; other site 657309003481 active site 657309003482 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309003483 SusD family; Region: SusD; pfam07980 657309003484 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309003485 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309003486 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309003487 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309003488 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309003489 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 657309003490 substrate binding site [chemical binding]; other site 657309003491 active site 657309003492 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 657309003493 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 657309003494 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 657309003495 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 657309003496 substrate binding site [chemical binding]; other site 657309003497 active site 657309003498 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 657309003499 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657309003500 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657309003501 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 657309003502 glucose/galactose transporter; Region: gluP; TIGR01272 657309003503 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657309003504 active site 657309003505 catalytic residues [active] 657309003506 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 657309003507 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 657309003508 ligand binding site [chemical binding]; other site 657309003509 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309003510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309003511 active site 657309003512 phosphorylation site [posttranslational modification] 657309003513 intermolecular recognition site; other site 657309003514 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 657309003515 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 657309003516 putative active site [active] 657309003517 putative NTP binding site [chemical binding]; other site 657309003518 putative nucleic acid binding site [nucleotide binding]; other site 657309003519 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 657309003520 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 657309003521 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 657309003522 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 657309003523 SLBB domain; Region: SLBB; pfam10531 657309003524 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 657309003525 amidase catalytic site [active] 657309003526 Zn binding residues [ion binding]; other site 657309003527 substrate binding site [chemical binding]; other site 657309003528 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309003529 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 657309003530 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309003531 VirE N-terminal domain; Region: VirE_N; pfam08800 657309003532 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 657309003533 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657309003534 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 657309003535 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 657309003536 Chain length determinant protein; Region: Wzz; pfam02706 657309003537 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 657309003538 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 657309003539 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657309003540 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 657309003541 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 657309003542 Predicted ATPase [General function prediction only]; Region: COG4637 657309003543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309003544 ABC transporter signature motif; other site 657309003545 Walker B; other site 657309003546 D-loop; other site 657309003547 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 657309003548 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 657309003549 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 657309003550 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 657309003551 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657309003552 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 657309003553 trimer interface [polypeptide binding]; other site 657309003554 active site 657309003555 substrate binding site [chemical binding]; other site 657309003556 CoA binding site [chemical binding]; other site 657309003557 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309003558 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 657309003559 active site 657309003560 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 657309003561 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 657309003562 Ligand binding site; other site 657309003563 metal-binding site 657309003564 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 657309003565 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 657309003566 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 657309003567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657309003568 UDP-galactopyranose mutase; Region: GLF; pfam03275 657309003569 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 657309003570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309003571 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657309003572 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 657309003573 trimer interface [polypeptide binding]; other site 657309003574 active site 657309003575 substrate binding site [chemical binding]; other site 657309003576 CoA binding site [chemical binding]; other site 657309003577 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 657309003578 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309003579 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 657309003580 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional; Region: PRK09677 657309003581 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 657309003582 putative trimer interface [polypeptide binding]; other site 657309003583 putative active site [active] 657309003584 putative substrate binding site [chemical binding]; other site 657309003585 putative CoA binding site [chemical binding]; other site 657309003586 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309003587 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 657309003588 active site 657309003589 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 657309003590 Protein of unknown function DUF86; Region: DUF86; cl01031 657309003591 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 657309003592 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 657309003593 putative NAD(P) binding site [chemical binding]; other site 657309003594 homodimer interface [polypeptide binding]; other site 657309003595 homotetramer interface [polypeptide binding]; other site 657309003596 active site 657309003597 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 657309003598 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 657309003599 active site 657309003600 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 657309003601 TrkA-C domain; Region: TrkA_C; pfam02080 657309003602 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657309003603 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 657309003604 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 657309003605 AAA domain; Region: AAA_33; pfam13671 657309003606 ligand-binding site [chemical binding]; other site 657309003607 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 657309003608 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 657309003609 Active Sites [active] 657309003610 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 657309003611 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 657309003612 CysD dimerization site [polypeptide binding]; other site 657309003613 G1 box; other site 657309003614 putative GEF interaction site [polypeptide binding]; other site 657309003615 GTP/Mg2+ binding site [chemical binding]; other site 657309003616 Switch I region; other site 657309003617 G2 box; other site 657309003618 G3 box; other site 657309003619 Switch II region; other site 657309003620 G4 box; other site 657309003621 G5 box; other site 657309003622 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 657309003623 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 657309003624 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 657309003625 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 657309003626 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309003627 ligand binding site [chemical binding]; other site 657309003628 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 657309003629 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 657309003630 active site 657309003631 catalytic residues [active] 657309003632 metal binding site [ion binding]; metal-binding site 657309003633 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 657309003634 TPR motif; other site 657309003635 TPR repeat; Region: TPR_11; pfam13414 657309003636 binding surface 657309003637 TPR repeat; Region: TPR_11; pfam13414 657309003638 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 657309003639 binding surface 657309003640 TPR repeat; Region: TPR_11; pfam13414 657309003641 TPR motif; other site 657309003642 Tetratricopeptide repeat; Region: TPR_9; pfam13371 657309003643 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 657309003644 binding surface 657309003645 TPR motif; other site 657309003646 TPR repeat; Region: TPR_11; pfam13414 657309003647 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 657309003648 binding surface 657309003649 TPR motif; other site 657309003650 TPR repeat; Region: TPR_11; pfam13414 657309003651 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 657309003652 TPR motif; other site 657309003653 TPR repeat; Region: TPR_11; pfam13414 657309003654 binding surface 657309003655 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 657309003656 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 657309003657 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657309003658 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 657309003659 active site 657309003660 dimer interface [polypeptide binding]; other site 657309003661 motif 1; other site 657309003662 motif 2; other site 657309003663 motif 3; other site 657309003664 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 657309003665 anticodon binding site; other site 657309003666 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 657309003667 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 657309003668 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 657309003669 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 657309003670 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 657309003671 23S rRNA binding site [nucleotide binding]; other site 657309003672 L21 binding site [polypeptide binding]; other site 657309003673 L13 binding site [polypeptide binding]; other site 657309003674 Flavodoxin domain; Region: Flavodoxin_5; cl17428 657309003675 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 657309003676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309003677 active site 657309003678 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309003679 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657309003680 CoA binding site [chemical binding]; other site 657309003681 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657309003682 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309003683 acyl-activating enzyme (AAE) consensus motif; other site 657309003684 CoA binding site [chemical binding]; other site 657309003685 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 657309003686 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 657309003687 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 657309003688 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657309003689 dimer interface [polypeptide binding]; other site 657309003690 PYR/PP interface [polypeptide binding]; other site 657309003691 TPP binding site [chemical binding]; other site 657309003692 substrate binding site [chemical binding]; other site 657309003693 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 657309003694 TPP-binding site; other site 657309003695 YceG-like family; Region: YceG; pfam02618 657309003696 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 657309003697 dimerization interface [polypeptide binding]; other site 657309003698 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 657309003699 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 657309003700 active site 657309003701 substrate binding site [chemical binding]; other site 657309003702 Mg2+ binding site [ion binding]; other site 657309003703 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 657309003704 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 657309003705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 657309003706 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 657309003707 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 657309003708 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 657309003709 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 657309003710 putative substrate translocation pore; other site 657309003711 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 657309003712 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 657309003713 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657309003714 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 657309003715 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309003716 PBP superfamily domain; Region: PBP_like_2; pfam12849 657309003717 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 657309003718 TPR motif; other site 657309003719 binding surface 657309003720 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 657309003721 binding surface 657309003722 TPR motif; other site 657309003723 TPR repeat; Region: TPR_11; pfam13414 657309003724 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657309003725 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657309003726 Walker A/P-loop; other site 657309003727 ATP binding site [chemical binding]; other site 657309003728 Q-loop/lid; other site 657309003729 ABC transporter signature motif; other site 657309003730 Walker B; other site 657309003731 D-loop; other site 657309003732 H-loop/switch region; other site 657309003733 Predicted transcriptional regulators [Transcription]; Region: COG1725 657309003734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657309003735 DNA-binding site [nucleotide binding]; DNA binding site 657309003736 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309003737 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 657309003738 dimer interface [polypeptide binding]; other site 657309003739 phosphorylation site [posttranslational modification] 657309003740 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 657309003741 ATP binding site [chemical binding]; other site 657309003742 Mg2+ binding site [ion binding]; other site 657309003743 G-X-G motif; other site 657309003744 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 657309003745 Ion channel; Region: Ion_trans_2; pfam07885 657309003746 glutaminase; Reviewed; Region: PRK12356 657309003747 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 657309003748 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 657309003749 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 657309003750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309003751 catalytic residue [active] 657309003752 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 657309003753 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657309003754 EamA-like transporter family; Region: EamA; pfam00892 657309003755 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 657309003756 nucleotide binding site/active site [active] 657309003757 HIT family signature motif; other site 657309003758 catalytic residue [active] 657309003759 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657309003760 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657309003761 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657309003762 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309003763 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309003764 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309003765 catalytic residues [active] 657309003766 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 657309003767 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 657309003768 RNase E interface [polypeptide binding]; other site 657309003769 trimer interface [polypeptide binding]; other site 657309003770 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 657309003771 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 657309003772 RNase E interface [polypeptide binding]; other site 657309003773 trimer interface [polypeptide binding]; other site 657309003774 active site 657309003775 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 657309003776 putative nucleic acid binding region [nucleotide binding]; other site 657309003777 G-X-X-G motif; other site 657309003778 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 657309003779 RNA binding site [nucleotide binding]; other site 657309003780 domain interface; other site 657309003781 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309003782 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 657309003783 non-specific DNA binding site [nucleotide binding]; other site 657309003784 salt bridge; other site 657309003785 sequence-specific DNA binding site [nucleotide binding]; other site 657309003786 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309003787 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309003788 butyrate kinase; Provisional; Region: PRK03011 657309003789 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 657309003790 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 657309003791 dimer interface [polypeptide binding]; other site 657309003792 catalytic triad [active] 657309003793 M28 Zn-Peptidases; Region: M28_like_6; cd08656 657309003794 Peptidase family M28; Region: Peptidase_M28; pfam04389 657309003795 metal binding site [ion binding]; metal-binding site 657309003796 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 657309003797 CAAX protease self-immunity; Region: Abi; pfam02517 657309003798 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657309003799 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 657309003800 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 657309003801 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 657309003802 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657309003803 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 657309003804 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 657309003805 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 657309003806 dimer interface [polypeptide binding]; other site 657309003807 phosphorylation site [posttranslational modification] 657309003808 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 657309003809 ATP binding site [chemical binding]; other site 657309003810 Mg2+ binding site [ion binding]; other site 657309003811 G-X-G motif; other site 657309003812 Rubredoxin [Energy production and conversion]; Region: COG1773 657309003813 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 657309003814 iron binding site [ion binding]; other site 657309003815 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 657309003816 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657309003817 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657309003818 PhoU domain; Region: PhoU; pfam01895 657309003819 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 657309003820 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 657309003821 active site 657309003822 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 657309003823 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 657309003824 proline aminopeptidase P II; Provisional; Region: PRK10879 657309003825 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 657309003826 active site 657309003827 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 657309003828 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 657309003829 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 657309003830 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 657309003831 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 657309003832 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 657309003833 lipoyl attachment site [posttranslational modification]; other site 657309003834 AIR carboxylase; Region: AIRC; pfam00731 657309003835 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 657309003836 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657309003837 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309003838 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657309003839 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657309003840 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657309003841 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 657309003842 metal binding site 2 [ion binding]; metal-binding site 657309003843 putative DNA binding helix; other site 657309003844 metal binding site 1 [ion binding]; metal-binding site 657309003845 dimer interface [polypeptide binding]; other site 657309003846 structural Zn2+ binding site [ion binding]; other site 657309003847 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 657309003848 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 657309003849 NAD(P) binding site [chemical binding]; other site 657309003850 LDH/MDH dimer interface [polypeptide binding]; other site 657309003851 substrate binding site [chemical binding]; other site 657309003852 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 657309003853 S1 domain; Region: S1_2; pfam13509 657309003854 Transglycosylase; Region: Transgly; pfam00912 657309003855 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 657309003856 Substrate binding site [chemical binding]; other site 657309003857 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 657309003858 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 657309003859 isoaspartyl dipeptidase; Provisional; Region: PRK10657 657309003860 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 657309003861 active site 657309003862 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 657309003863 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 657309003864 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 657309003865 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 657309003866 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309003867 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309003868 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309003869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657309003870 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657309003871 FtsX-like permease family; Region: FtsX; pfam02687 657309003872 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657309003873 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657309003874 FtsX-like permease family; Region: FtsX; pfam02687 657309003875 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657309003876 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657309003877 nucleotide binding site [chemical binding]; other site 657309003878 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 657309003879 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 657309003880 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 657309003881 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309003882 active site 657309003883 metal binding site [ion binding]; metal-binding site 657309003884 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657309003885 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309003886 Beta-lactamase; Region: Beta-lactamase; cl17358 657309003887 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 657309003888 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 657309003889 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 657309003890 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 657309003891 putative DNA binding site [nucleotide binding]; other site 657309003892 putative Zn2+ binding site [ion binding]; other site 657309003893 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 657309003894 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657309003895 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309003896 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657309003897 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 657309003898 active site residue [active] 657309003899 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 657309003900 CPxP motif; other site 657309003901 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 657309003902 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309003903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309003904 active site 657309003905 phosphorylation site [posttranslational modification] 657309003906 intermolecular recognition site; other site 657309003907 dimerization interface [polypeptide binding]; other site 657309003908 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 657309003909 Walker A motif; other site 657309003910 ATP binding site [chemical binding]; other site 657309003911 Walker B motif; other site 657309003912 arginine finger; other site 657309003913 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309003914 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 657309003915 nucleotide binding site [chemical binding]; other site 657309003916 substrate binding site [chemical binding]; other site 657309003917 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657309003918 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 657309003919 putative efflux protein, MATE family; Region: matE; TIGR00797 657309003920 TIGR02757 family protein; Region: TIGR02757 657309003921 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 657309003922 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657309003923 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657309003924 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 657309003925 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 657309003926 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309003927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309003928 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309003929 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 657309003930 ligand binding site [chemical binding]; other site 657309003931 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 657309003932 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 657309003933 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 657309003934 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 657309003935 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 657309003936 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309003937 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 657309003938 amidase catalytic site [active] 657309003939 Zn binding residues [ion binding]; other site 657309003940 substrate binding site [chemical binding]; other site 657309003941 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 657309003942 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 657309003943 Part of AAA domain; Region: AAA_19; pfam13245 657309003944 Family description; Region: UvrD_C_2; pfam13538 657309003945 PAS fold; Region: PAS_3; pfam08447 657309003946 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657309003947 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 657309003948 DNA binding residues [nucleotide binding] 657309003949 dimerization interface [polypeptide binding]; other site 657309003950 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 657309003951 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 657309003952 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 657309003953 FMN binding site [chemical binding]; other site 657309003954 substrate binding site [chemical binding]; other site 657309003955 putative catalytic residue [active] 657309003956 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 657309003957 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657309003958 ATP binding site [chemical binding]; other site 657309003959 Mg++ binding site [ion binding]; other site 657309003960 motif III; other site 657309003961 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 657309003962 nucleotide binding region [chemical binding]; other site 657309003963 ATP-binding site [chemical binding]; other site 657309003964 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 657309003965 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 657309003966 DNA-binding site [nucleotide binding]; DNA binding site 657309003967 RNA-binding motif; other site 657309003968 thiamine monophosphate kinase; Provisional; Region: PRK05731 657309003969 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 657309003970 ATP binding site [chemical binding]; other site 657309003971 dimerization interface [polypeptide binding]; other site 657309003972 purine nucleoside phosphorylase; Provisional; Region: PRK08202 657309003973 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 657309003974 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 657309003975 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 657309003976 tandem repeat interface [polypeptide binding]; other site 657309003977 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 657309003978 oligomer interface [polypeptide binding]; other site 657309003979 active site residues [active] 657309003980 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 657309003981 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 657309003982 tandem repeat interface [polypeptide binding]; other site 657309003983 oligomer interface [polypeptide binding]; other site 657309003984 active site residues [active] 657309003985 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309003986 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309003987 FecR protein; Region: FecR; pfam04773 657309003988 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309003989 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309003990 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309003991 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 657309003992 DNA binding residues [nucleotide binding] 657309003993 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309003994 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309003995 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309003996 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309003997 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309003998 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309003999 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 657309004000 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 657309004001 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 657309004002 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309004003 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 657309004004 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309004005 active site 657309004006 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 657309004007 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309004008 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309004009 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309004010 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309004011 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 657309004012 ATP binding site [chemical binding]; other site 657309004013 Mg2+ binding site [ion binding]; other site 657309004014 G-X-G motif; other site 657309004015 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309004016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309004017 active site 657309004018 phosphorylation site [posttranslational modification] 657309004019 intermolecular recognition site; other site 657309004020 dimerization interface [polypeptide binding]; other site 657309004021 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309004022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004023 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 657309004024 catalytic core [active] 657309004025 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 657309004026 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657309004027 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 657309004028 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 657309004029 transmembrane helices; other site 657309004030 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309004031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309004032 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 657309004033 DNA binding residues [nucleotide binding] 657309004034 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309004035 FecR protein; Region: FecR; pfam04773 657309004036 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309004037 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004038 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004039 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004040 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309004041 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309004042 active site 657309004043 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 657309004044 starch binding site [chemical binding]; other site 657309004045 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 657309004046 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 657309004047 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 657309004048 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657309004049 nucleotide binding site [chemical binding]; other site 657309004050 Hexokinase; Region: Hexokinase_2; pfam03727 657309004051 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 657309004052 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 657309004053 Transposase [DNA replication, recombination, and repair]; Region: COG5433 657309004054 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 657309004055 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 657309004056 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657309004057 active site 657309004058 catalytic tetrad [active] 657309004059 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 657309004060 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 657309004061 active site 657309004062 catalytic triad [active] 657309004063 oxyanion hole [active] 657309004064 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 657309004065 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 657309004066 active site 657309004067 oxyanion hole [active] 657309004068 catalytic triad [active] 657309004069 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309004070 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309004071 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309004072 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309004073 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 657309004074 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657309004075 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657309004076 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 657309004077 active sites [active] 657309004078 tetramer interface [polypeptide binding]; other site 657309004079 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 657309004080 imidazolonepropionase; Validated; Region: PRK09356 657309004081 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 657309004082 active site 657309004083 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 657309004084 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 657309004085 Formiminotransferase domain; Region: FTCD; pfam02971 657309004086 urocanate hydratase; Provisional; Region: PRK05414 657309004087 MutS domain III; Region: MutS_III; pfam05192 657309004088 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 657309004089 Walker A/P-loop; other site 657309004090 ATP binding site [chemical binding]; other site 657309004091 Q-loop/lid; other site 657309004092 ABC transporter signature motif; other site 657309004093 Walker B; other site 657309004094 D-loop; other site 657309004095 H-loop/switch region; other site 657309004096 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 657309004097 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 657309004098 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 657309004099 alphaNTD - beta interaction site [polypeptide binding]; other site 657309004100 alphaNTD homodimer interface [polypeptide binding]; other site 657309004101 alphaNTD - beta' interaction site [polypeptide binding]; other site 657309004102 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 657309004103 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657309004104 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 657309004105 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 657309004106 RNA binding surface [nucleotide binding]; other site 657309004107 30S ribosomal protein S11; Validated; Region: PRK05309 657309004108 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 657309004109 30S ribosomal protein S13; Region: bact_S13; TIGR03631 657309004110 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 657309004111 rRNA binding site [nucleotide binding]; other site 657309004112 predicted 30S ribosome binding site; other site 657309004113 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 657309004114 active site 657309004115 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 657309004116 SecY translocase; Region: SecY; pfam00344 657309004117 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 657309004118 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 657309004119 23S rRNA binding site [nucleotide binding]; other site 657309004120 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 657309004121 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 657309004122 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 657309004123 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 657309004124 5S rRNA interface [nucleotide binding]; other site 657309004125 L27 interface [polypeptide binding]; other site 657309004126 23S rRNA interface [nucleotide binding]; other site 657309004127 L5 interface [polypeptide binding]; other site 657309004128 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 657309004129 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657309004130 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657309004131 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 657309004132 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 657309004133 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 657309004134 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 657309004135 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 657309004136 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 657309004137 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 657309004138 RNA binding site [nucleotide binding]; other site 657309004139 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 657309004140 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 657309004141 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 657309004142 23S rRNA interface [nucleotide binding]; other site 657309004143 putative translocon interaction site; other site 657309004144 signal recognition particle (SRP54) interaction site; other site 657309004145 L23 interface [polypeptide binding]; other site 657309004146 trigger factor interaction site; other site 657309004147 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 657309004148 23S rRNA interface [nucleotide binding]; other site 657309004149 5S rRNA interface [nucleotide binding]; other site 657309004150 putative antibiotic binding site [chemical binding]; other site 657309004151 L25 interface [polypeptide binding]; other site 657309004152 L27 interface [polypeptide binding]; other site 657309004153 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 657309004154 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 657309004155 G-X-X-G motif; other site 657309004156 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 657309004157 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 657309004158 putative translocon binding site; other site 657309004159 protein-rRNA interface [nucleotide binding]; other site 657309004160 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 657309004161 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 657309004162 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 657309004163 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 657309004164 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 657309004165 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 657309004166 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 657309004167 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 657309004168 elongation factor G; Reviewed; Region: PRK12739 657309004169 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 657309004170 G1 box; other site 657309004171 putative GEF interaction site [polypeptide binding]; other site 657309004172 GTP/Mg2+ binding site [chemical binding]; other site 657309004173 Switch I region; other site 657309004174 G2 box; other site 657309004175 G3 box; other site 657309004176 Switch II region; other site 657309004177 G4 box; other site 657309004178 G5 box; other site 657309004179 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 657309004180 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 657309004181 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 657309004182 30S ribosomal protein S7; Validated; Region: PRK05302 657309004183 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 657309004184 S17 interaction site [polypeptide binding]; other site 657309004185 S8 interaction site; other site 657309004186 16S rRNA interaction site [nucleotide binding]; other site 657309004187 streptomycin interaction site [chemical binding]; other site 657309004188 23S rRNA interaction site [nucleotide binding]; other site 657309004189 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 657309004190 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 657309004191 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 657309004192 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 657309004193 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 657309004194 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 657309004195 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 657309004196 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 657309004197 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 657309004198 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 657309004199 DNA binding site [nucleotide binding] 657309004200 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 657309004201 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 657309004202 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 657309004203 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 657309004204 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 657309004205 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 657309004206 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 657309004207 RPB12 interaction site [polypeptide binding]; other site 657309004208 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 657309004209 RPB3 interaction site [polypeptide binding]; other site 657309004210 RPB1 interaction site [polypeptide binding]; other site 657309004211 RPB11 interaction site [polypeptide binding]; other site 657309004212 RPB10 interaction site [polypeptide binding]; other site 657309004213 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 657309004214 core dimer interface [polypeptide binding]; other site 657309004215 peripheral dimer interface [polypeptide binding]; other site 657309004216 L10 interface [polypeptide binding]; other site 657309004217 L11 interface [polypeptide binding]; other site 657309004218 putative EF-Tu interaction site [polypeptide binding]; other site 657309004219 putative EF-G interaction site [polypeptide binding]; other site 657309004220 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 657309004221 23S rRNA interface [nucleotide binding]; other site 657309004222 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 657309004223 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 657309004224 mRNA/rRNA interface [nucleotide binding]; other site 657309004225 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 657309004226 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 657309004227 23S rRNA interface [nucleotide binding]; other site 657309004228 L7/L12 interface [polypeptide binding]; other site 657309004229 putative thiostrepton binding site; other site 657309004230 L25 interface [polypeptide binding]; other site 657309004231 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 657309004232 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 657309004233 putative homodimer interface [polypeptide binding]; other site 657309004234 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657309004235 heterodimer interface [polypeptide binding]; other site 657309004236 homodimer interface [polypeptide binding]; other site 657309004237 elongation factor Tu; Reviewed; Region: PRK12735 657309004238 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 657309004239 G1 box; other site 657309004240 GEF interaction site [polypeptide binding]; other site 657309004241 GTP/Mg2+ binding site [chemical binding]; other site 657309004242 Switch I region; other site 657309004243 G2 box; other site 657309004244 G3 box; other site 657309004245 Switch II region; other site 657309004246 G4 box; other site 657309004247 G5 box; other site 657309004248 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 657309004249 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 657309004250 Antibiotic Binding Site [chemical binding]; other site 657309004251 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 657309004252 30S subunit binding site; other site 657309004253 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 657309004254 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657309004255 active site 657309004256 Int/Topo IB signature motif; other site 657309004257 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 657309004258 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657309004259 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657309004260 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657309004261 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 657309004262 active site 657309004263 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 657309004264 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 657309004265 trimer interface [polypeptide binding]; other site 657309004266 putative metal binding site [ion binding]; other site 657309004267 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 657309004268 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 657309004269 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 657309004270 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657309004271 HIGH motif; other site 657309004272 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657309004273 active site 657309004274 KMSKS motif; other site 657309004275 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 657309004276 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657309004277 Zn2+ binding site [ion binding]; other site 657309004278 Mg2+ binding site [ion binding]; other site 657309004279 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657309004280 Low molecular weight phosphatase family; Region: LMWPc; cd00115 657309004281 active site 657309004282 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 657309004283 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 657309004284 primosomal protein N' Region: priA; TIGR00595 657309004285 ATP binding site [chemical binding]; other site 657309004286 putative Mg++ binding site [ion binding]; other site 657309004287 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657309004288 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 657309004289 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 657309004290 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 657309004291 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309004292 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657309004293 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 657309004294 Aspartase; Region: Aspartase; cd01357 657309004295 active sites [active] 657309004296 tetramer interface [polypeptide binding]; other site 657309004297 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 657309004298 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 657309004299 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 657309004300 active site 657309004301 homodimer interface [polypeptide binding]; other site 657309004302 homotetramer interface [polypeptide binding]; other site 657309004303 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 657309004304 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657309004305 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309004306 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309004307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309004308 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 657309004309 dimer interface [polypeptide binding]; other site 657309004310 phosphorylation site [posttranslational modification] 657309004311 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 657309004312 ATP binding site [chemical binding]; other site 657309004313 Mg2+ binding site [ion binding]; other site 657309004314 G-X-G motif; other site 657309004315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309004316 active site 657309004317 phosphorylation site [posttranslational modification] 657309004318 intermolecular recognition site; other site 657309004319 dimerization interface [polypeptide binding]; other site 657309004320 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309004321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004322 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309004323 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309004324 putative active site [active] 657309004325 catalytic site [active] 657309004326 putative metal binding site [ion binding]; other site 657309004327 oligomer interface [polypeptide binding]; other site 657309004328 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309004329 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309004330 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 657309004331 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309004332 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309004333 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 657309004334 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004335 SusD family; Region: SusD; pfam07980 657309004336 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004337 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004338 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004339 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309004340 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309004341 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309004342 putative active site [active] 657309004343 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309004344 catalytic site [active] 657309004345 putative metal binding site [ion binding]; other site 657309004346 oligomer interface [polypeptide binding]; other site 657309004347 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 657309004348 active site 657309004349 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 657309004350 putative substrate binding site [chemical binding]; other site 657309004351 active site 657309004352 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309004353 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309004354 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309004355 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 657309004356 putative ligand binding site [chemical binding]; other site 657309004357 putative catalytic site [active] 657309004358 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309004359 Melibiase; Region: Melibiase; pfam02065 657309004360 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 657309004361 active site 657309004362 catalytic triad [active] 657309004363 oxyanion hole [active] 657309004364 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 657309004365 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 657309004366 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 657309004367 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309004368 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657309004369 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657309004370 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 657309004371 protein binding site [polypeptide binding]; other site 657309004372 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 657309004373 Catalytic dyad [active] 657309004374 Adenosylhomocysteinase; Provisional; Region: PTZ00075 657309004375 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 657309004376 homotetramer interface [polypeptide binding]; other site 657309004377 ligand binding site [chemical binding]; other site 657309004378 catalytic site [active] 657309004379 NAD binding site [chemical binding]; other site 657309004380 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657309004381 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657309004382 Outer membrane efflux protein; Region: OEP; pfam02321 657309004383 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 657309004384 Outer membrane efflux protein; Region: OEP; pfam02321 657309004385 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 657309004386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309004387 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309004388 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 657309004389 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309004390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004391 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309004392 active site 657309004393 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 657309004394 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 657309004395 active site 657309004396 substrate-binding site [chemical binding]; other site 657309004397 metal-binding site [ion binding] 657309004398 ATP binding site [chemical binding]; other site 657309004399 MutS domain III; Region: MutS_III; pfam05192 657309004400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309004401 Walker A/P-loop; other site 657309004402 ATP binding site [chemical binding]; other site 657309004403 Q-loop/lid; other site 657309004404 ABC transporter signature motif; other site 657309004405 Walker B; other site 657309004406 D-loop; other site 657309004407 H-loop/switch region; other site 657309004408 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 657309004409 Chromate transporter; Region: Chromate_transp; pfam02417 657309004410 Chromate transporter; Region: Chromate_transp; pfam02417 657309004411 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 657309004412 16S/18S rRNA binding site [nucleotide binding]; other site 657309004413 S13e-L30e interaction site [polypeptide binding]; other site 657309004414 25S rRNA binding site [nucleotide binding]; other site 657309004415 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 657309004416 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 657309004417 non-specific DNA binding site [nucleotide binding]; other site 657309004418 salt bridge; other site 657309004419 sequence-specific DNA binding site [nucleotide binding]; other site 657309004420 Cupin domain; Region: Cupin_2; pfam07883 657309004421 AMP-binding domain protein; Validated; Region: PRK08315 657309004422 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309004423 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 657309004424 acyl-activating enzyme (AAE) consensus motif; other site 657309004425 putative AMP binding site [chemical binding]; other site 657309004426 putative active site [active] 657309004427 putative CoA binding site [chemical binding]; other site 657309004428 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 657309004429 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 657309004430 Substrate binding site; other site 657309004431 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 657309004432 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309004433 active site 657309004434 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 657309004435 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 657309004436 active site 657309004437 dimerization interface [polypeptide binding]; other site 657309004438 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309004439 putative catalytic site [active] 657309004440 putative metal binding site [ion binding]; other site 657309004441 putative phosphate binding site [ion binding]; other site 657309004442 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309004443 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 657309004444 FecR protein; Region: FecR; pfam04773 657309004445 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309004446 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309004447 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 657309004448 DNA binding residues [nucleotide binding] 657309004449 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 657309004450 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 657309004451 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 657309004452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 657309004453 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 657309004454 fructuronate transporter; Provisional; Region: PRK10034; cl15264 657309004455 glycerate kinase; Region: TIGR00045 657309004456 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 657309004457 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 657309004458 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 657309004459 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309004460 putative catalytic site [active] 657309004461 putative metal binding site [ion binding]; other site 657309004462 putative phosphate binding site [ion binding]; other site 657309004463 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309004464 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004465 SusD family; Region: SusD; pfam07980 657309004466 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309004467 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004468 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004469 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004470 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309004471 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657309004472 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657309004473 DNA binding site [nucleotide binding] 657309004474 domain linker motif; other site 657309004475 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 657309004476 dimerization interface [polypeptide binding]; other site 657309004477 ligand binding site [chemical binding]; other site 657309004478 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657309004479 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 657309004480 substrate binding site [chemical binding]; other site 657309004481 dimer interface [polypeptide binding]; other site 657309004482 ATP binding site [chemical binding]; other site 657309004483 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004484 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004485 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309004486 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309004487 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004488 SusD family; Region: SusD; pfam07980 657309004489 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 657309004490 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 657309004491 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 657309004492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657309004493 Putative esterase; Region: Esterase; pfam00756 657309004494 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 657309004495 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657309004496 Interdomain contacts; other site 657309004497 Cytokine receptor motif; other site 657309004498 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 657309004499 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309004500 putative catalytic site [active] 657309004501 putative metal binding site [ion binding]; other site 657309004502 putative catalytic site [active] 657309004503 putative phosphate binding site [ion binding]; other site 657309004504 putative phosphate binding site [ion binding]; other site 657309004505 putative metal binding site [ion binding]; other site 657309004506 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309004507 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 657309004508 active site 657309004509 metal binding site [ion binding]; metal-binding site 657309004510 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309004511 active site 657309004512 metal binding site [ion binding]; metal-binding site 657309004513 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 657309004514 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 657309004515 catalytic residue [active] 657309004516 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 657309004517 catalytic residues [active] 657309004518 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657309004519 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309004520 peroxiredoxin; Region: AhpC; TIGR03137 657309004521 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 657309004522 dimer interface [polypeptide binding]; other site 657309004523 decamer (pentamer of dimers) interface [polypeptide binding]; other site 657309004524 catalytic triad [active] 657309004525 peroxidatic and resolving cysteines [active] 657309004526 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_22; cd04681 657309004527 nudix motif; other site 657309004528 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 657309004529 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 657309004530 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 657309004531 binding surface 657309004532 TPR motif; other site 657309004533 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 657309004534 binding surface 657309004535 TPR motif; other site 657309004536 TPR repeat; Region: TPR_11; pfam13414 657309004537 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 657309004538 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 657309004539 binding surface 657309004540 TPR motif; other site 657309004541 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 657309004542 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 657309004543 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 657309004544 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309004545 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309004546 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309004547 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 657309004548 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 657309004549 catalytic triad [active] 657309004550 Melibiase; Region: Melibiase; pfam02065 657309004551 beta-D-glucuronidase; Provisional; Region: PRK10150 657309004552 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309004553 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309004554 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309004555 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309004556 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309004557 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309004558 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309004559 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309004560 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004561 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004562 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309004563 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309004564 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 657309004565 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 657309004566 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657309004567 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309004568 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309004569 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 657309004570 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 657309004571 active site 657309004572 Trp docking motif [polypeptide binding]; other site 657309004573 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309004574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309004575 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 657309004576 dimer interface [polypeptide binding]; other site 657309004577 phosphorylation site [posttranslational modification] 657309004578 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 657309004579 ATP binding site [chemical binding]; other site 657309004580 Mg2+ binding site [ion binding]; other site 657309004581 G-X-G motif; other site 657309004582 Response regulator receiver domain; Region: Response_reg; pfam00072 657309004583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309004584 active site 657309004585 phosphorylation site [posttranslational modification] 657309004586 intermolecular recognition site; other site 657309004587 dimerization interface [polypeptide binding]; other site 657309004588 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309004589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004590 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 657309004591 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 657309004592 active site 657309004593 interdomain interaction site; other site 657309004594 putative metal-binding site [ion binding]; other site 657309004595 nucleotide binding site [chemical binding]; other site 657309004596 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 657309004597 domain I; other site 657309004598 DNA binding groove [nucleotide binding] 657309004599 phosphate binding site [ion binding]; other site 657309004600 domain II; other site 657309004601 domain III; other site 657309004602 nucleotide binding site [chemical binding]; other site 657309004603 catalytic site [active] 657309004604 domain IV; other site 657309004605 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 657309004606 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 657309004607 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 657309004608 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 657309004609 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 657309004610 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 657309004611 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 657309004612 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309004613 active site 657309004614 HIGH motif; other site 657309004615 nucleotide binding site [chemical binding]; other site 657309004616 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 657309004617 KMSK motif region; other site 657309004618 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657309004619 tRNA binding surface [nucleotide binding]; other site 657309004620 anticodon binding site; other site 657309004621 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 657309004622 IHF dimer interface [polypeptide binding]; other site 657309004623 IHF - DNA interface [nucleotide binding]; other site 657309004624 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 657309004625 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 657309004626 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 657309004627 putative catalytic site [active] 657309004628 putative metal binding site [ion binding]; other site 657309004629 putative phosphate binding site [ion binding]; other site 657309004630 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 657309004631 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 657309004632 active site 657309004633 Zn binding site [ion binding]; other site 657309004634 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 657309004635 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 657309004636 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 657309004637 Protein export membrane protein; Region: SecD_SecF; pfam02355 657309004638 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 657309004639 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657309004640 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657309004641 dimer interface [polypeptide binding]; other site 657309004642 PYR/PP interface [polypeptide binding]; other site 657309004643 TPP binding site [chemical binding]; other site 657309004644 substrate binding site [chemical binding]; other site 657309004645 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 657309004646 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 657309004647 TPP-binding site [chemical binding]; other site 657309004648 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657309004649 AAA domain; Region: AAA_14; pfam13173 657309004650 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309004651 beta-D-glucuronidase; Provisional; Region: PRK10150 657309004652 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309004653 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309004654 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 657309004655 Melibiase; Region: Melibiase; pfam02065 657309004656 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 657309004657 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 657309004658 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309004659 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657309004660 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309004661 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 657309004662 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 657309004663 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309004664 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309004665 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309004666 SusE outer membrane protein; Region: SusE; pfam14292 657309004667 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309004668 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004669 SusD family; Region: SusD; pfam07980 657309004670 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309004671 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004672 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004673 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004674 Meckelin (Transmembrane protein 67); Region: Meckelin; pfam09773 657309004675 FecR protein; Region: FecR; pfam04773 657309004676 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309004677 Ribosome-binding factor A; Region: RBFA; pfam02033 657309004678 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 657309004679 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 657309004680 S-adenosylmethionine binding site [chemical binding]; other site 657309004681 pyruvate kinase; Provisional; Region: PRK05826 657309004682 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 657309004683 domain interfaces; other site 657309004684 active site 657309004685 Dehydroquinase class II; Region: DHquinase_II; pfam01220 657309004686 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 657309004687 trimer interface [polypeptide binding]; other site 657309004688 active site 657309004689 dimer interface [polypeptide binding]; other site 657309004690 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 657309004691 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657309004692 active site 657309004693 Int/Topo IB signature motif; other site 657309004694 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 657309004695 TPR motif; other site 657309004696 binding surface 657309004697 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309004698 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309004699 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309004700 catalytic residues [active] 657309004701 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 657309004702 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 657309004703 active site 657309004704 DNA binding site [nucleotide binding] 657309004705 Int/Topo IB signature motif; other site 657309004706 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657309004707 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657309004708 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657309004709 catalytic residues [active] 657309004710 catalytic nucleophile [active] 657309004711 Recombinase; Region: Recombinase; pfam07508 657309004712 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657309004713 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309004714 Domain of unknown function (DUF4361); Region: DUF4361; pfam14274 657309004715 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309004716 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004717 SusD family; Region: SusD; pfam07980 657309004718 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004719 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004720 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004721 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 657309004722 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 657309004723 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 657309004724 NHL repeat; Region: NHL; pfam01436 657309004725 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657309004726 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 657309004727 putative active site [active] 657309004728 putative catalytic site [active] 657309004729 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 657309004730 putative substrate binding site [chemical binding]; other site 657309004731 active site 657309004732 SusE outer membrane protein; Region: SusE; pfam14292 657309004733 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309004734 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004735 SusD family; Region: SusD; pfam07980 657309004736 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004737 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004738 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004739 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309004740 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 657309004741 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 657309004742 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 657309004743 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 657309004744 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309004745 Two component regulator propeller; Region: Reg_prop; pfam07494 657309004746 Two component regulator propeller; Region: Reg_prop; pfam07494 657309004747 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309004748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309004749 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 657309004750 dimer interface [polypeptide binding]; other site 657309004751 phosphorylation site [posttranslational modification] 657309004752 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 657309004753 ATP binding site [chemical binding]; other site 657309004754 Mg2+ binding site [ion binding]; other site 657309004755 G-X-G motif; other site 657309004756 Response regulator receiver domain; Region: Response_reg; pfam00072 657309004757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309004758 active site 657309004759 phosphorylation site [posttranslational modification] 657309004760 intermolecular recognition site; other site 657309004761 dimerization interface [polypeptide binding]; other site 657309004762 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657309004763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004764 ApbE family; Region: ApbE; pfam02424 657309004765 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 657309004766 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 657309004767 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309004768 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309004769 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309004770 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309004771 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309004772 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309004773 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 657309004774 CoA binding domain; Region: CoA_binding_2; pfam13380 657309004775 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 657309004776 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 657309004777 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 657309004778 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 657309004779 active site 657309004780 HIGH motif; other site 657309004781 KMSKS motif; other site 657309004782 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 657309004783 tRNA binding surface [nucleotide binding]; other site 657309004784 anticodon binding site; other site 657309004785 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 657309004786 dimer interface [polypeptide binding]; other site 657309004787 putative tRNA-binding site [nucleotide binding]; other site 657309004788 colanic acid exporter; Provisional; Region: PRK10459 657309004789 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 657309004790 LicD family; Region: LicD; pfam04991 657309004791 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309004792 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657309004793 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309004794 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 657309004795 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 657309004796 metal-binding site 657309004797 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657309004798 active site 657309004799 catalytic triad [active] 657309004800 oxyanion hole [active] 657309004801 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 657309004802 S-adenosylmethionine binding site [chemical binding]; other site 657309004803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004804 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309004805 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 657309004806 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 657309004807 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657309004808 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 657309004809 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 657309004810 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657309004811 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 657309004812 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 657309004813 putative DNA binding site [nucleotide binding]; other site 657309004814 putative Zn2+ binding site [ion binding]; other site 657309004815 AsnC family; Region: AsnC_trans_reg; pfam01037 657309004816 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 657309004817 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657309004818 active site 657309004819 motif I; other site 657309004820 motif II; other site 657309004821 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657309004822 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309004823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309004824 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 657309004825 DNA binding residues [nucleotide binding] 657309004826 SWIM zinc finger; Region: SWIM; pfam04434 657309004827 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 657309004828 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657309004829 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309004830 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 657309004831 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 657309004832 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 657309004833 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 657309004834 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309004835 active site 657309004836 metal binding site [ion binding]; metal-binding site 657309004837 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657309004838 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657309004839 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 657309004840 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657309004841 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657309004842 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 657309004843 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657309004844 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004845 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004846 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004847 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 657309004848 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004849 SusD family; Region: SusD; pfam07980 657309004850 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657309004851 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309004852 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309004853 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309004854 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657309004855 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 657309004856 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 657309004857 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309004858 active site 657309004859 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 657309004860 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 657309004861 putative substrate translocation pore; other site 657309004862 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 657309004863 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309004864 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309004865 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309004866 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309004867 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309004868 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309004869 Coenzyme A binding pocket [chemical binding]; other site 657309004870 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 657309004871 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 657309004872 ATP binding site [chemical binding]; other site 657309004873 Mg2+ binding site [ion binding]; other site 657309004874 G-X-G motif; other site 657309004875 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 657309004876 ATP binding site [chemical binding]; other site 657309004877 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 657309004878 active site 657309004879 putative metal-binding site [ion binding]; other site 657309004880 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657309004881 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 657309004882 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 657309004883 active site 657309004884 (T/H)XGH motif; other site 657309004885 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657309004886 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657309004887 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 657309004888 protein binding site [polypeptide binding]; other site 657309004889 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 657309004890 Catalytic dyad [active] 657309004891 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309004892 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 657309004893 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657309004894 Glyco_18 domain; Region: Glyco_18; smart00636 657309004895 active site 657309004896 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309004897 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004898 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 657309004899 proximal heme binding site [chemical binding]; other site 657309004900 putative dimer interface [polypeptide binding]; other site 657309004901 putative Iron-sulfur protein interface [polypeptide binding]; other site 657309004902 distal heme binding site [chemical binding]; other site 657309004903 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 657309004904 L-aspartate oxidase; Provisional; Region: PRK06175 657309004905 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 657309004906 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 657309004907 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 657309004908 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 657309004909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309004910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309004911 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309004912 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309004913 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 657309004914 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 657309004915 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309004916 Protein of unknown function DUF86; Region: DUF86; cl01031 657309004917 LPP20 lipoprotein; Region: LPP20; pfam02169 657309004918 LPP20 lipoprotein; Region: LPP20; pfam02169 657309004919 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309004920 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 657309004921 non-specific DNA binding site [nucleotide binding]; other site 657309004922 salt bridge; other site 657309004923 sequence-specific DNA binding site [nucleotide binding]; other site 657309004924 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 657309004925 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309004926 putative active site [active] 657309004927 putative metal binding site [ion binding]; other site 657309004928 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 657309004929 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657309004930 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 657309004931 WYL domain; Region: WYL; pfam13280 657309004932 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 657309004933 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 657309004934 active site 657309004935 catalytic residues [active] 657309004936 metal binding site [ion binding]; metal-binding site 657309004937 DNA protecting protein DprA; Region: dprA; TIGR00732 657309004938 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 657309004939 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 657309004940 active site 657309004941 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657309004942 Class I aldolases; Region: Aldolase_Class_I; cl17187 657309004943 Peptidase family U32; Region: Peptidase_U32; pfam01136 657309004944 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 657309004945 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 657309004946 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 657309004947 FMN binding site [chemical binding]; other site 657309004948 active site 657309004949 catalytic residues [active] 657309004950 substrate binding site [chemical binding]; other site 657309004951 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 657309004952 active site 657309004953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309004954 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657309004955 NAD(P) binding site [chemical binding]; other site 657309004956 active site 657309004957 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309004958 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309004959 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 657309004960 DNA binding residues [nucleotide binding] 657309004961 FecR protein; Region: FecR; pfam04773 657309004962 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309004963 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309004964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 657309004965 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 657309004966 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309004967 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309004968 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 657309004969 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 657309004970 ribonuclease R; Region: RNase_R; TIGR02063 657309004971 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 657309004972 RNB domain; Region: RNB; pfam00773 657309004973 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 657309004974 RNA binding site [nucleotide binding]; other site 657309004975 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 657309004976 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309004977 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309004978 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309004979 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309004980 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309004981 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309004982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 657309004983 Putative glucoamylase; Region: Glycoamylase; pfam10091 657309004984 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004985 Glycosyl hydrolase family 43; Region: GH43_3; cd08982 657309004986 active site 657309004987 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309004988 sugar binding site [chemical binding]; other site 657309004989 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657309004990 Interdomain contacts; other site 657309004991 Cytokine receptor motif; other site 657309004992 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309004993 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309004994 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309004995 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309004996 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 657309004997 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309004998 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309004999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309005000 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 657309005001 dimer interface [polypeptide binding]; other site 657309005002 phosphorylation site [posttranslational modification] 657309005003 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 657309005004 ATP binding site [chemical binding]; other site 657309005005 Mg2+ binding site [ion binding]; other site 657309005006 G-X-G motif; other site 657309005007 Response regulator receiver domain; Region: Response_reg; pfam00072 657309005008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005009 active site 657309005010 phosphorylation site [posttranslational modification] 657309005011 intermolecular recognition site; other site 657309005012 dimerization interface [polypeptide binding]; other site 657309005013 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309005014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005015 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 657309005016 active site 657309005017 catalytic residues [active] 657309005018 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005019 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005020 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005021 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 657309005022 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309005023 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005024 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309005025 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309005026 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309005027 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657309005028 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 657309005029 dimer interface [polypeptide binding]; other site 657309005030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309005031 catalytic residue [active] 657309005032 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 657309005033 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 657309005034 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657309005035 substrate binding pocket [chemical binding]; other site 657309005036 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 657309005037 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005038 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005039 SusD family; Region: SusD; pfam07980 657309005040 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005041 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005042 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005043 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 657309005044 Domain of unknown function (DUF377); Region: DUF377; pfam04041 657309005045 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309005046 active site 657309005047 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 657309005048 Na binding site [ion binding]; other site 657309005049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005050 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309005051 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005052 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 657309005053 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309005054 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309005055 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309005056 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657309005057 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657309005058 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 657309005059 active site 657309005060 catalytic site [active] 657309005061 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 657309005062 SusE outer membrane protein; Region: SusE; pfam14292 657309005063 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 657309005064 starch binding site [chemical binding]; other site 657309005065 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005066 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005067 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005068 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005069 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005070 Fic family protein [Function unknown]; Region: COG3177 657309005071 Fic/DOC family; Region: Fic; pfam02661 657309005072 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 657309005073 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657309005074 active site 657309005075 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309005076 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309005077 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309005078 Sulfatase; Region: Sulfatase; pfam00884 657309005079 Glycosyl hydrolase family 43; Region: GH43_7; cd08986 657309005080 active site 657309005081 Sulfatase; Region: Sulfatase; cl17466 657309005082 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309005083 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 657309005084 Uncharacterized conserved protein [Function unknown]; Region: COG1262 657309005085 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 657309005086 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 657309005087 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657309005088 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309005089 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 657309005090 DNA binding residues [nucleotide binding] 657309005091 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309005092 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 657309005093 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005094 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005095 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 657309005096 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309005097 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 657309005098 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005099 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005100 SusD family; Region: SusD; pfam07980 657309005101 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005102 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005103 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309005104 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309005105 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 657309005106 active site 657309005107 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309005108 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309005109 Sulfatase; Region: Sulfatase; pfam00884 657309005110 Predicted acyl esterases [General function prediction only]; Region: COG2936 657309005111 MFS transport protein AraJ; Provisional; Region: PRK10091 657309005112 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 657309005113 putative substrate translocation pore; other site 657309005114 GTP-binding protein YchF; Reviewed; Region: PRK09601 657309005115 YchF GTPase; Region: YchF; cd01900 657309005116 G1 box; other site 657309005117 GTP/Mg2+ binding site [chemical binding]; other site 657309005118 Switch I region; other site 657309005119 G2 box; other site 657309005120 Switch II region; other site 657309005121 G3 box; other site 657309005122 G4 box; other site 657309005123 G5 box; other site 657309005124 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 657309005125 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 657309005126 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 657309005127 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 657309005128 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 657309005129 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005130 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005131 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005132 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 657309005133 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005134 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005135 Spumavirus aspartic protease (A9); Region: Spuma_A9PTase; pfam03539 657309005136 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 657309005137 active site 657309005138 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 657309005139 active site 657309005140 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 657309005141 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309005142 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309005143 active site 657309005144 metal binding site [ion binding]; metal-binding site 657309005145 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_2; cd11576 657309005146 putative ligand binding site [chemical binding]; other site 657309005147 putative catalytic site [active] 657309005148 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_1; cd11578 657309005149 putative ligand binding site [chemical binding]; other site 657309005150 putative catalytic site [active] 657309005151 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309005152 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005153 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005154 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005155 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005156 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 657309005157 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309005158 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309005159 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309005160 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 657309005161 dimer interface [polypeptide binding]; other site 657309005162 Alkaline phosphatase homologues; Region: alkPPc; smart00098 657309005163 active site 657309005164 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657309005165 EamA-like transporter family; Region: EamA; pfam00892 657309005166 EamA-like transporter family; Region: EamA; pfam00892 657309005167 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309005168 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309005169 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657309005170 active site 657309005171 NTP binding site [chemical binding]; other site 657309005172 metal binding triad [ion binding]; metal-binding site 657309005173 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 657309005174 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 657309005175 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309005176 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 657309005177 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309005178 active site 657309005179 HIGH motif; other site 657309005180 nucleotide binding site [chemical binding]; other site 657309005181 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309005182 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657309005183 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309005184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309005185 active site 657309005186 KMSKS motif; other site 657309005187 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 657309005188 tRNA binding surface [nucleotide binding]; other site 657309005189 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657309005190 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657309005191 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657309005192 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 657309005193 active site 657309005194 dimerization interface [polypeptide binding]; other site 657309005195 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309005196 ligand binding site [chemical binding]; other site 657309005197 quinolinate synthetase; Provisional; Region: PRK09375 657309005198 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657309005199 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 657309005200 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 657309005201 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309005202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309005203 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 657309005204 DNA binding residues [nucleotide binding] 657309005205 FecR protein; Region: FecR; pfam04773 657309005206 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005207 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005208 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005209 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309005210 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 657309005211 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005212 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005213 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 657309005214 active site 657309005215 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 657309005216 active site 657309005217 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 657309005218 FeS/SAM binding site; other site 657309005219 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309005220 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 657309005221 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309005222 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 657309005223 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 657309005224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 657309005225 Putative glucoamylase; Region: Glycoamylase; pfam10091 657309005226 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005227 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005228 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005229 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005230 Beta-lactamase; Region: Beta-lactamase; cl17358 657309005231 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309005232 Two component regulator propeller; Region: Reg_prop; pfam07494 657309005233 Two component regulator propeller; Region: Reg_prop; pfam07494 657309005234 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309005235 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309005236 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 657309005237 dimer interface [polypeptide binding]; other site 657309005238 phosphorylation site [posttranslational modification] 657309005239 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 657309005240 ATP binding site [chemical binding]; other site 657309005241 Mg2+ binding site [ion binding]; other site 657309005242 G-X-G motif; other site 657309005243 Response regulator receiver domain; Region: Response_reg; pfam00072 657309005244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005245 active site 657309005246 phosphorylation site [posttranslational modification] 657309005247 intermolecular recognition site; other site 657309005248 dimerization interface [polypeptide binding]; other site 657309005249 Mga helix-turn-helix domain; Region: Mga; pfam05043 657309005250 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309005251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005252 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309005253 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005254 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005255 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309005256 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005257 SusD family; Region: SusD; pfam07980 657309005258 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309005259 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 657309005260 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309005261 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309005262 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309005263 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 657309005264 non-specific DNA binding site [nucleotide binding]; other site 657309005265 salt bridge; other site 657309005266 sequence-specific DNA binding site [nucleotide binding]; other site 657309005267 HipA N-terminal domain; Region: couple_hipA; TIGR03071 657309005268 HipA-like N-terminal domain; Region: HipA_N; pfam07805 657309005269 HipA-like C-terminal domain; Region: HipA_C; pfam07804 657309005270 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309005271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005272 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309005273 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309005274 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309005275 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309005276 Outer membrane efflux protein; Region: OEP; pfam02321 657309005277 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309005278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309005279 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 657309005280 dimer interface [polypeptide binding]; other site 657309005281 phosphorylation site [posttranslational modification] 657309005282 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 657309005283 ATP binding site [chemical binding]; other site 657309005284 Mg2+ binding site [ion binding]; other site 657309005285 G-X-G motif; other site 657309005286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309005287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005288 active site 657309005289 phosphorylation site [posttranslational modification] 657309005290 intermolecular recognition site; other site 657309005291 dimerization interface [polypeptide binding]; other site 657309005292 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309005293 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005294 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 657309005295 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309005296 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309005297 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309005298 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657309005299 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 657309005300 active site 657309005301 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005302 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005303 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005304 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005305 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005306 SusD family; Region: SusD; pfam07980 657309005307 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309005308 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309005309 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309005310 active site 657309005311 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657309005312 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309005313 putative transporter; Provisional; Region: PRK11660 657309005314 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 657309005315 Sulfate transporter family; Region: Sulfate_transp; pfam00916 657309005316 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 657309005317 Rubrerythrin [Energy production and conversion]; Region: COG1592 657309005318 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 657309005319 binuclear metal center [ion binding]; other site 657309005320 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657309005321 iron binding site [ion binding]; other site 657309005322 DNA adenine methylase (dam); Region: dam; TIGR00571 657309005323 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 657309005324 DNA methylase; Region: N6_N4_Mtase; pfam01555 657309005325 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309005326 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309005327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309005328 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 657309005329 dimer interface [polypeptide binding]; other site 657309005330 phosphorylation site [posttranslational modification] 657309005331 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 657309005332 ATP binding site [chemical binding]; other site 657309005333 Mg2+ binding site [ion binding]; other site 657309005334 G-X-G motif; other site 657309005335 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309005336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005337 active site 657309005338 phosphorylation site [posttranslational modification] 657309005339 intermolecular recognition site; other site 657309005340 dimerization interface [polypeptide binding]; other site 657309005341 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309005342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005343 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005344 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005345 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005346 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005347 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005348 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309005349 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 657309005350 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309005351 putative substrate translocation pore; other site 657309005352 Domain of unknown function (DUF377); Region: DUF377; pfam04041 657309005353 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309005354 active site 657309005355 L-aspartate oxidase; Provisional; Region: PRK09077 657309005356 L-aspartate oxidase; Provisional; Region: PRK06175 657309005357 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 657309005358 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 657309005359 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 657309005360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657309005361 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309005362 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657309005363 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309005364 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309005365 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309005366 catalytic residues [active] 657309005367 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 657309005368 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 657309005369 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 657309005370 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 657309005371 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 657309005372 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657309005373 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 657309005374 FeS/SAM binding site; other site 657309005375 TRAM domain; Region: TRAM; pfam01938 657309005376 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 657309005377 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 657309005378 Catalytic site [active] 657309005379 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 657309005380 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309005381 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 657309005382 ZPR1-related zinc finger protein; Region: zpr1_rel; cl00771 657309005383 Methyltransferase domain; Region: Methyltransf_23; pfam13489 657309005384 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 657309005385 S-adenosylmethionine binding site [chemical binding]; other site 657309005386 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 657309005387 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657309005388 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 657309005389 Bacitracin resistance protein BacA; Region: BacA; pfam02673 657309005390 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 657309005391 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 657309005392 RNA binding site [nucleotide binding]; other site 657309005393 active site 657309005394 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 657309005395 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 657309005396 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 657309005397 catalytic center binding site [active] 657309005398 ATP binding site [chemical binding]; other site 657309005399 S-adenosylmethionine synthetase; Validated; Region: PRK05250 657309005400 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 657309005401 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 657309005402 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 657309005403 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 657309005404 TPR motif; other site 657309005405 binding surface 657309005406 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309005407 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 657309005408 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 657309005409 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 657309005410 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 657309005411 active site 657309005412 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 657309005413 active site 657309005414 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 657309005415 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 657309005416 active site 657309005417 HIGH motif; other site 657309005418 dimer interface [polypeptide binding]; other site 657309005419 KMSKS motif; other site 657309005420 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 657309005421 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 657309005422 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 657309005423 NADP binding site [chemical binding]; other site 657309005424 homodimer interface [polypeptide binding]; other site 657309005425 active site 657309005426 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 657309005427 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309005428 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657309005429 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 657309005430 NodB motif; other site 657309005431 active site 657309005432 catalytic site [active] 657309005433 metal binding site [ion binding]; metal-binding site 657309005434 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 657309005435 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 657309005436 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 657309005437 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 657309005438 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 657309005439 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 657309005440 putative metal binding residues [ion binding]; other site 657309005441 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 657309005442 Predicted membrane protein [Function unknown]; Region: COG1238 657309005443 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 657309005444 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 657309005445 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 657309005446 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 657309005447 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 657309005448 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 657309005449 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309005450 ORF6N domain; Region: ORF6N; pfam10543 657309005451 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 657309005452 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 657309005453 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 657309005454 serine O-acetyltransferase; Region: cysE; TIGR01172 657309005455 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 657309005456 trimer interface [polypeptide binding]; other site 657309005457 active site 657309005458 substrate binding site [chemical binding]; other site 657309005459 CoA binding site [chemical binding]; other site 657309005460 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 657309005461 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 657309005462 binding surface 657309005463 TPR motif; other site 657309005464 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 657309005465 binding surface 657309005466 TPR motif; other site 657309005467 Histidine kinase; Region: His_kinase; pfam06580 657309005468 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 657309005469 ATP binding site [chemical binding]; other site 657309005470 Mg2+ binding site [ion binding]; other site 657309005471 G-X-G motif; other site 657309005472 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657309005473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005474 active site 657309005475 phosphorylation site [posttranslational modification] 657309005476 intermolecular recognition site; other site 657309005477 dimerization interface [polypeptide binding]; other site 657309005478 LytTr DNA-binding domain; Region: LytTR; smart00850 657309005479 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 657309005480 DNA polymerase I; Provisional; Region: PRK05755 657309005481 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 657309005482 active site 657309005483 metal binding site 1 [ion binding]; metal-binding site 657309005484 putative 5' ssDNA interaction site; other site 657309005485 metal binding site 3; metal-binding site 657309005486 metal binding site 2 [ion binding]; metal-binding site 657309005487 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 657309005488 putative DNA binding site [nucleotide binding]; other site 657309005489 putative metal binding site [ion binding]; other site 657309005490 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 657309005491 active site 657309005492 catalytic site [active] 657309005493 substrate binding site [chemical binding]; other site 657309005494 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 657309005495 active site 657309005496 DNA binding site [nucleotide binding] 657309005497 catalytic site [active] 657309005498 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 657309005499 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 657309005500 substrate binding pocket [chemical binding]; other site 657309005501 chain length determination region; other site 657309005502 substrate-Mg2+ binding site; other site 657309005503 catalytic residues [active] 657309005504 aspartate-rich region 1; other site 657309005505 active site lid residues [active] 657309005506 aspartate-rich region 2; other site 657309005507 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 657309005508 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 657309005509 intersubunit interface [polypeptide binding]; other site 657309005510 active site 657309005511 catalytic residue [active] 657309005512 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 657309005513 homodimer interface [polypeptide binding]; other site 657309005514 metal binding site [ion binding]; metal-binding site 657309005515 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 657309005516 dimerization interface [polypeptide binding]; other site 657309005517 putative tRNAtyr binding site [nucleotide binding]; other site 657309005518 putative active site [active] 657309005519 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 657309005520 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 657309005521 GIY-YIG motif/motif A; other site 657309005522 active site 657309005523 catalytic site [active] 657309005524 putative DNA binding site [nucleotide binding]; other site 657309005525 metal binding site [ion binding]; metal-binding site 657309005526 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 657309005527 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309005528 active site 657309005529 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 657309005530 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 657309005531 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 657309005532 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309005533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309005534 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 657309005535 DNA binding residues [nucleotide binding] 657309005536 FecR protein; Region: FecR; pfam04773 657309005537 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309005538 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005539 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005540 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309005541 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 657309005542 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657309005543 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309005544 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 657309005545 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309005546 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 657309005547 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309005548 Lipocalin-like; Region: Lipocalin_3; pfam12702 657309005549 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657309005550 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 657309005551 active site 657309005552 DNA binding site [nucleotide binding] 657309005553 Int/Topo IB signature motif; other site 657309005554 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309005555 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 657309005556 active site 657309005557 metal binding site [ion binding]; metal-binding site 657309005558 DNA topoisomerase; Region: Topoisom_bac; pfam01131 657309005559 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 657309005560 domain I; other site 657309005561 DNA binding groove [nucleotide binding] 657309005562 phosphate binding site [ion binding]; other site 657309005563 domain II; other site 657309005564 domain III; other site 657309005565 nucleotide binding site [chemical binding]; other site 657309005566 catalytic site [active] 657309005567 domain IV; other site 657309005568 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657309005569 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 657309005570 active site 657309005571 metal binding site [ion binding]; metal-binding site 657309005572 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 657309005573 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 657309005574 Toprim-like; Region: Toprim_2; pfam13155 657309005575 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 657309005576 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 657309005577 AAA-like domain; Region: AAA_10; pfam12846 657309005578 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 657309005579 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309005580 RteC protein; Region: RteC; pfam09357 657309005581 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309005582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005583 active site 657309005584 phosphorylation site [posttranslational modification] 657309005585 intermolecular recognition site; other site 657309005586 dimerization interface [polypeptide binding]; other site 657309005587 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 657309005588 Walker A motif; other site 657309005589 ATP binding site [chemical binding]; other site 657309005590 Walker B motif; other site 657309005591 arginine finger; other site 657309005592 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309005593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309005594 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 657309005595 dimer interface [polypeptide binding]; other site 657309005596 phosphorylation site [posttranslational modification] 657309005597 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 657309005598 ATP binding site [chemical binding]; other site 657309005599 Mg2+ binding site [ion binding]; other site 657309005600 G-X-G motif; other site 657309005601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309005602 Response regulator receiver domain; Region: Response_reg; pfam00072 657309005603 active site 657309005604 phosphorylation site [posttranslational modification] 657309005605 intermolecular recognition site; other site 657309005606 dimerization interface [polypeptide binding]; other site 657309005607 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 657309005608 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005609 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005610 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005611 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005612 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005613 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005614 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309005615 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657309005616 metal binding site 2 [ion binding]; metal-binding site 657309005617 putative DNA binding helix; other site 657309005618 metal binding site 1 [ion binding]; metal-binding site 657309005619 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 657309005620 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 657309005621 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657309005622 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657309005623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005624 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 657309005625 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309005626 ligand binding site [chemical binding]; other site 657309005627 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 657309005628 amphipathic channel; other site 657309005629 Asn-Pro-Ala signature motifs; other site 657309005630 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 657309005631 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 657309005632 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 657309005633 IHF dimer interface [polypeptide binding]; other site 657309005634 IHF - DNA interface [nucleotide binding]; other site 657309005635 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 657309005636 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005637 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 657309005638 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 657309005639 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 657309005640 active site 657309005641 DNA binding site [nucleotide binding] 657309005642 Int/Topo IB signature motif; other site 657309005643 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309005644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309005645 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309005646 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 657309005647 non-specific DNA binding site [nucleotide binding]; other site 657309005648 salt bridge; other site 657309005649 sequence-specific DNA binding site [nucleotide binding]; other site 657309005650 HipA N-terminal domain; Region: Couple_hipA; pfam13657 657309005651 HipA-like N-terminal domain; Region: HipA_N; pfam07805 657309005652 HipA-like C-terminal domain; Region: HipA_C; pfam07804 657309005653 AIPR protein; Region: AIPR; pfam10592 657309005654 Archaeal ATPase; Region: Arch_ATPase; pfam01637 657309005655 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 657309005656 non-specific DNA binding site [nucleotide binding]; other site 657309005657 salt bridge; other site 657309005658 sequence-specific DNA binding site [nucleotide binding]; other site 657309005659 putative sulfurtransferase DndC; Region: DNA_S_dndC; TIGR03183 657309005660 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 657309005661 Active Sites [active] 657309005662 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 657309005663 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 657309005664 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 657309005665 PLD-like domain; Region: PLDc_2; pfam13091 657309005666 putative active site [active] 657309005667 catalytic site [active] 657309005668 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 657309005669 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 657309005670 ATP binding site [chemical binding]; other site 657309005671 putative Mg++ binding site [ion binding]; other site 657309005672 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 657309005673 nucleotide binding region [chemical binding]; other site 657309005674 ATP-binding site [chemical binding]; other site 657309005675 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 657309005676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309005677 Walker A/P-loop; other site 657309005678 ATP binding site [chemical binding]; other site 657309005679 Restriction endonuclease; Region: Mrr_cat; pfam04471 657309005680 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 657309005681 ATP binding site [chemical binding]; other site 657309005682 Mg2+ binding site [ion binding]; other site 657309005683 G-X-G motif; other site 657309005684 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309005685 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 657309005686 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657309005687 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309005688 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309005689 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 657309005690 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 657309005691 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309005692 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309005693 Int/Topo IB signature motif; other site 657309005694 Helix-turn-helix domain; Region: HTH_17; cl17695 657309005695 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309005696 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309005697 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309005698 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309005699 AAA domain; Region: AAA_31; pfam13614 657309005700 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 657309005701 P-loop; other site 657309005702 Magnesium ion binding site [ion binding]; other site 657309005703 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 657309005704 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; cl10029 657309005705 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 657309005706 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 657309005707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 657309005708 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 657309005709 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 657309005710 Conjugative transposon protein TraO; Region: TraO; pfam10626 657309005711 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 657309005712 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 657309005713 BRO family, N-terminal domain; Region: Bro-N; smart01040 657309005714 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 657309005715 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 657309005716 DNA binding site [nucleotide binding] 657309005717 substrate interaction site [chemical binding]; other site 657309005718 Helix-turn-helix domain; Region: HTH_17; cl17695 657309005719 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 657309005720 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 657309005721 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 657309005722 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 657309005723 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 657309005724 Walker A motif; other site 657309005725 ATP binding site [chemical binding]; other site 657309005726 Walker B motif; other site 657309005727 arginine finger; other site 657309005728 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 657309005729 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657309005730 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309005731 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 657309005732 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309005733 Domain of unknown function (DUF389); Region: DUF389; pfam04087 657309005734 Peptidase S46; Region: Peptidase_S46; pfam10459 657309005735 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657309005736 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 657309005737 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 657309005738 ATP binding site [chemical binding]; other site 657309005739 Mg++ binding site [ion binding]; other site 657309005740 motif III; other site 657309005741 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 657309005742 nucleotide binding region [chemical binding]; other site 657309005743 ATP-binding site [chemical binding]; other site 657309005744 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 657309005745 RNA binding site [nucleotide binding]; other site 657309005746 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 657309005747 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 657309005748 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 657309005749 Uncharacterized conserved protein [Function unknown]; Region: COG3538 657309005750 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 657309005751 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 657309005752 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 657309005753 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657309005754 putative substrate binding site [chemical binding]; other site 657309005755 putative ATP binding site [chemical binding]; other site 657309005756 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 657309005757 putative active site [active] 657309005758 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 657309005759 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657309005760 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657309005761 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657309005762 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 657309005763 active site 657309005764 catalytic triad [active] 657309005765 oxyanion hole [active] 657309005766 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309005767 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309005768 putative active site [active] 657309005769 catalytic site [active] 657309005770 putative metal binding site [ion binding]; other site 657309005771 oligomer interface [polypeptide binding]; other site 657309005772 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 657309005773 Predicted periplasmic protein [Function unknown]; Region: COG3698 657309005774 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005775 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005776 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309005777 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005778 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005779 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005780 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 657309005781 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309005782 FecR protein; Region: FecR; pfam04773 657309005783 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309005784 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309005785 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657309005786 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309005787 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_9; cd12170 657309005788 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 657309005789 putative ligand binding site [chemical binding]; other site 657309005790 putative NAD binding site [chemical binding]; other site 657309005791 L-aspartate dehydrogenase; Provisional; Region: PRK13303 657309005792 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657309005793 Domain of unknown function DUF108; Region: DUF108; pfam01958 657309005794 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005795 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005796 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005797 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309005798 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005799 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005800 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 657309005801 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 657309005802 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309005803 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309005804 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309005805 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 657309005806 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 657309005807 Fic family protein [Function unknown]; Region: COG3177 657309005808 Fic/DOC family; Region: Fic; pfam02661 657309005809 WbqC-like protein family; Region: WbqC; pfam08889 657309005810 signal peptidase I; Provisional; Region: PRK10861 657309005811 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 657309005812 Catalytic site [active] 657309005813 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 657309005814 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 657309005815 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 657309005816 dihydrodipicolinate reductase; Provisional; Region: PRK00048 657309005817 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 657309005818 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 657309005819 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 657309005820 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 657309005821 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 657309005822 TPR motif; other site 657309005823 binding surface 657309005824 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 657309005825 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 657309005826 binding surface 657309005827 TPR motif; other site 657309005828 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 657309005829 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 657309005830 DXD motif; other site 657309005831 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 657309005832 HEAT repeats; Region: HEAT_2; pfam13646 657309005833 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 657309005834 Lyase, N terminal; Region: Lyase_N; pfam09092 657309005835 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 657309005836 substrate binding site [chemical binding]; other site 657309005837 catalytic residues [active] 657309005838 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 657309005839 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 657309005840 FMN binding site [chemical binding]; other site 657309005841 active site 657309005842 catalytic residues [active] 657309005843 substrate binding site [chemical binding]; other site 657309005844 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005845 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005846 SusD family; Region: SusD; pfam07980 657309005847 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005848 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005849 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309005850 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 657309005851 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309005852 Sulfatase; Region: Sulfatase; pfam00884 657309005853 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 657309005854 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 657309005855 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309005856 putative metal binding site [ion binding]; other site 657309005857 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309005858 putative catalytic site [active] 657309005859 putative phosphate binding site [ion binding]; other site 657309005860 putative metal binding site [ion binding]; other site 657309005861 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005862 SusD family; Region: SusD; pfam07980 657309005863 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005864 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005865 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005866 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309005867 SusD family; Region: SusD; pfam07980 657309005868 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005869 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005870 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309005871 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 657309005872 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 657309005873 Melibiase; Region: Melibiase; pfam02065 657309005874 Melibiase; Region: Melibiase; pfam02065 657309005875 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 657309005876 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309005877 putative substrate translocation pore; other site 657309005878 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657309005879 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 657309005880 dimer interface [polypeptide binding]; other site 657309005881 active site 657309005882 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657309005883 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657309005884 nucleotide binding site [chemical binding]; other site 657309005885 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309005886 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309005887 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309005888 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 657309005889 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309005890 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657309005891 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657309005892 DNA binding site [nucleotide binding] 657309005893 domain linker motif; other site 657309005894 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 657309005895 dimerization interface [polypeptide binding]; other site 657309005896 ligand binding site [chemical binding]; other site 657309005897 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 657309005898 putative ligand binding site [chemical binding]; other site 657309005899 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 657309005900 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 657309005901 active site 657309005902 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 657309005903 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309005904 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309005905 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309005906 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 657309005907 E3 interaction surface; other site 657309005908 lipoyl attachment site [posttranslational modification]; other site 657309005909 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309005910 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 657309005911 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309005912 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309005913 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309005914 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657309005915 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309005916 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309005917 Bacterial Ig-like domain; Region: Big_5; pfam13205 657309005918 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309005919 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 657309005920 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 657309005921 CoenzymeA binding site [chemical binding]; other site 657309005922 subunit interaction site [polypeptide binding]; other site 657309005923 PHB binding site; other site 657309005924 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309005925 FecR protein; Region: FecR; pfam04773 657309005926 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309005927 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309005928 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 657309005929 DNA binding residues [nucleotide binding] 657309005930 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309005931 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309005932 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657309005933 Int/Topo IB signature motif; other site 657309005934 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657309005935 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 657309005936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 657309005937 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309005938 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309005939 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309005940 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309005941 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309005942 SusD family; Region: SusD; pfam07980 657309005943 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 657309005944 putative substrate binding site [chemical binding]; other site 657309005945 active site 657309005946 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309005947 active site 657309005948 metal binding site [ion binding]; metal-binding site 657309005949 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309005950 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 657309005951 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309005952 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309005953 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309005954 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309005955 Sulfatase; Region: Sulfatase; cl17466 657309005956 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309005957 Lyase, N terminal; Region: Lyase_N; pfam09092 657309005958 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 657309005959 substrate binding site [chemical binding]; other site 657309005960 catalytic residues [active] 657309005961 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 657309005962 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657309005963 active site 657309005964 HIGH motif; other site 657309005965 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657309005966 KMSKS motif; other site 657309005967 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657309005968 tRNA binding surface [nucleotide binding]; other site 657309005969 anticodon binding site; other site 657309005970 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 657309005971 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657309005972 active site 657309005973 motif I; other site 657309005974 motif II; other site 657309005975 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 657309005976 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657309005977 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 657309005978 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 657309005979 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 657309005980 ATP binding site [chemical binding]; other site 657309005981 putative Mg++ binding site [ion binding]; other site 657309005982 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 657309005983 nucleotide binding region [chemical binding]; other site 657309005984 ATP-binding site [chemical binding]; other site 657309005985 tRNA-specific 2-thiouridylase MnmA; Provisional; Region: mnmA; PRK14665 657309005986 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 657309005987 Ligand Binding Site [chemical binding]; other site 657309005988 GH3 auxin-responsive promoter; Region: GH3; pfam03321 657309005989 6-phosphofructokinase; Provisional; Region: PRK03202 657309005990 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657309005991 active site 657309005992 ADP/pyrophosphate binding site [chemical binding]; other site 657309005993 dimerization interface [polypeptide binding]; other site 657309005994 allosteric effector site; other site 657309005995 fructose-1,6-bisphosphate binding site; other site 657309005996 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 657309005997 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 657309005998 dimerization interface [polypeptide binding]; other site 657309005999 active site 657309006000 metal binding site [ion binding]; metal-binding site 657309006001 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 657309006002 dsRNA binding site [nucleotide binding]; other site 657309006003 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657309006004 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 657309006005 dimer interface [polypeptide binding]; other site 657309006006 active site 657309006007 acyl carrier protein; Provisional; Region: acpP; PRK00982 657309006008 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 657309006009 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 657309006010 active site 657309006011 substrate binding site [chemical binding]; other site 657309006012 cosubstrate binding site; other site 657309006013 catalytic site [active] 657309006014 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 657309006015 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 657309006016 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 657309006017 putative active site [active] 657309006018 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309006019 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 657309006020 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 657309006021 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 657309006022 putative active site [active] 657309006023 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 657309006024 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 657309006025 active site 657309006026 substrate binding site [chemical binding]; other site 657309006027 ATP binding site [chemical binding]; other site 657309006028 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 657309006029 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309006030 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 657309006031 LicD family; Region: LicD; pfam04991 657309006032 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 657309006033 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 657309006034 active site 657309006035 metal-binding site 657309006036 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 657309006037 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 657309006038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309006039 homodimer interface [polypeptide binding]; other site 657309006040 catalytic residue [active] 657309006041 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309006042 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 657309006043 active site 657309006044 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309006045 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657309006046 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657309006047 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 657309006048 Probable Catalytic site; other site 657309006049 metal-binding site 657309006050 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 657309006051 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309006052 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 657309006053 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 657309006054 active site 657309006055 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 657309006056 active site 657309006057 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 657309006058 metal-binding site 657309006059 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 657309006060 GDP-Fucose binding site [chemical binding]; other site 657309006061 MAC/Perforin domain; Region: MACPF; cl02616 657309006062 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 657309006063 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657309006064 putative trimer interface [polypeptide binding]; other site 657309006065 putative active site [active] 657309006066 putative substrate binding site [chemical binding]; other site 657309006067 putative CoA binding site [chemical binding]; other site 657309006068 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 657309006069 FAD dependent oxidoreductase; Region: DAO; pfam01266 657309006070 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 657309006071 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 657309006072 trimer interface [polypeptide binding]; other site 657309006073 active site 657309006074 UDP-GlcNAc binding site [chemical binding]; other site 657309006075 lipid binding site [chemical binding]; lipid-binding site 657309006076 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309006077 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309006078 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309006079 VirE N-terminal domain; Region: VirE_N; pfam08800 657309006080 Virulence-associated protein E; Region: VirE; pfam05272 657309006081 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309006082 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 657309006083 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657309006084 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657309006085 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 657309006086 Walker A/P-loop; other site 657309006087 ATP binding site [chemical binding]; other site 657309006088 Q-loop/lid; other site 657309006089 ABC transporter signature motif; other site 657309006090 Walker B; other site 657309006091 D-loop; other site 657309006092 H-loop/switch region; other site 657309006093 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 657309006094 putative active site [active] 657309006095 putative catalytic site [active] 657309006096 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657309006097 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657309006098 Ligand binding site; other site 657309006099 Putative Catalytic site; other site 657309006100 DXD motif; other site 657309006101 Predicted membrane protein [Function unknown]; Region: COG2246 657309006102 GtrA-like protein; Region: GtrA; pfam04138 657309006103 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 657309006104 Sulfatase; Region: Sulfatase; pfam00884 657309006105 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 657309006106 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 657309006107 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 657309006108 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 657309006109 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 657309006110 RNA/DNA hybrid binding site [nucleotide binding]; other site 657309006111 active site 657309006112 Nitroreductase-like family 4. 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_4; cd02140 657309006113 dimer interface [polypeptide binding]; other site 657309006114 FMN binding site [chemical binding]; other site 657309006115 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 657309006116 Shikimate kinase; Region: SKI; pfam01202 657309006117 ADP binding site [chemical binding]; other site 657309006118 magnesium binding site [ion binding]; other site 657309006119 putative shikimate binding site; other site 657309006120 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657309006121 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 657309006122 binding surface 657309006123 TPR motif; other site 657309006124 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657309006125 Sel1-like repeats; Region: SEL1; smart00671 657309006126 Sel1-like repeats; Region: SEL1; smart00671 657309006127 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309006128 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 657309006129 active site 657309006130 DNA binding site [nucleotide binding] 657309006131 Int/Topo IB signature motif; other site 657309006132 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309006133 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 657309006134 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309006135 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 657309006136 non-specific DNA binding site [nucleotide binding]; other site 657309006137 salt bridge; other site 657309006138 sequence-specific DNA binding site [nucleotide binding]; other site 657309006139 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 657309006140 DNA methylase; Region: N6_N4_Mtase; pfam01555 657309006141 MjaI restriction endonuclease; Region: RE_MjaI; pfam09568 657309006142 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657309006143 Sel1-like repeats; Region: SEL1; smart00671 657309006144 Sel1-like repeats; Region: SEL1; smart00671 657309006145 Sel1-like repeats; Region: SEL1; smart00671 657309006146 Sel1-like repeats; Region: SEL1; smart00671 657309006147 HSP90 family protein; Provisional; Region: PRK14083 657309006148 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 657309006149 ATP binding site [chemical binding]; other site 657309006150 Mg2+ binding site [ion binding]; other site 657309006151 G-X-G motif; other site 657309006152 arginine decarboxylase; Provisional; Region: PRK05354 657309006153 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 657309006154 dimer interface [polypeptide binding]; other site 657309006155 active site 657309006156 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657309006157 catalytic residues [active] 657309006158 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 657309006159 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309006160 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309006161 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 657309006162 DNA binding residues [nucleotide binding] 657309006163 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 657309006164 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 657309006165 Protein of unknown function DUF45; Region: DUF45; pfam01863 657309006166 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309006167 O-Antigen ligase; Region: Wzy_C; pfam04932 657309006168 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 657309006169 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 657309006170 TPR motif; other site 657309006171 TPR repeat; Region: TPR_11; pfam13414 657309006172 binding surface 657309006173 hypothetical protein; Validated; Region: PRK02001 657309006174 heptamer interface [polypeptide binding]; other site 657309006175 Sm1 motif; other site 657309006176 hexamer interface [polypeptide binding]; other site 657309006177 RNA binding site [nucleotide binding]; other site 657309006178 Sm2 motif; other site 657309006179 transcription termination factor NusA; Region: NusA; TIGR01953 657309006180 NusA N-terminal domain; Region: NusA_N; pfam08529 657309006181 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 657309006182 RNA binding site [nucleotide binding]; other site 657309006183 homodimer interface [polypeptide binding]; other site 657309006184 NusA-like KH domain; Region: KH_5; pfam13184 657309006185 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 657309006186 G-X-X-G motif; other site 657309006187 translation initiation factor IF-2; Region: IF-2; TIGR00487 657309006188 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 657309006189 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 657309006190 G1 box; other site 657309006191 putative GEF interaction site [polypeptide binding]; other site 657309006192 GTP/Mg2+ binding site [chemical binding]; other site 657309006193 Switch I region; other site 657309006194 G2 box; other site 657309006195 G3 box; other site 657309006196 Switch II region; other site 657309006197 G4 box; other site 657309006198 G5 box; other site 657309006199 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 657309006200 Translation-initiation factor 2; Region: IF-2; pfam11987 657309006201 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 657309006202 putative ABC transporter; Region: ycf24; CHL00085 657309006203 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 657309006204 FeS assembly ATPase SufC; Region: sufC; TIGR01978 657309006205 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 657309006206 Walker A/P-loop; other site 657309006207 ATP binding site [chemical binding]; other site 657309006208 Q-loop/lid; other site 657309006209 ABC transporter signature motif; other site 657309006210 Walker B; other site 657309006211 D-loop; other site 657309006212 H-loop/switch region; other site 657309006213 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 657309006214 FeS assembly protein SufD; Region: sufD; TIGR01981 657309006215 hypothetical protein; Provisional; Region: PRK02877 657309006216 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657309006217 Melibiase; Region: Melibiase; pfam02065 657309006218 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 657309006219 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 657309006220 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 657309006221 RNA/DNA hybrid binding site [nucleotide binding]; other site 657309006222 active site 657309006223 phosphoglyceromutase; Provisional; Region: PRK05434 657309006224 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 657309006225 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 657309006226 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 657309006227 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 657309006228 ATP binding site [chemical binding]; other site 657309006229 Mg2+ binding site [ion binding]; other site 657309006230 G-X-G motif; other site 657309006231 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 657309006232 anchoring element; other site 657309006233 dimer interface [polypeptide binding]; other site 657309006234 ATP binding site [chemical binding]; other site 657309006235 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 657309006236 active site 657309006237 putative metal-binding site [ion binding]; other site 657309006238 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657309006239 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 657309006240 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 657309006241 Recombination protein O N terminal; Region: RecO_N; pfam11967 657309006242 Recombination protein O C terminal; Region: RecO_C; pfam02565 657309006243 MAC/Perforin domain; Region: MACPF; cl02616 657309006244 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 657309006245 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309006246 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 657309006247 binding surface 657309006248 TPR motif; other site 657309006249 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309006250 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 657309006251 TPR motif; other site 657309006252 binding surface 657309006253 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309006254 Yqey-like protein; Region: YqeY; pfam09424 657309006255 cell division protein FtsZ; Validated; Region: PRK09330 657309006256 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 657309006257 nucleotide binding site [chemical binding]; other site 657309006258 SulA interaction site; other site 657309006259 Cell division protein FtsA; Region: FtsA; smart00842 657309006260 Cell division protein FtsA; Region: FtsA; pfam14450 657309006261 Cell division protein FtsQ; Region: FtsQ; pfam03799 657309006262 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 657309006263 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657309006264 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657309006265 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657309006266 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 657309006267 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 657309006268 homodimer interface [polypeptide binding]; other site 657309006269 active site 657309006270 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 657309006271 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657309006272 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 657309006273 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 657309006274 Mg++ binding site [ion binding]; other site 657309006275 putative catalytic motif [active] 657309006276 putative substrate binding site [chemical binding]; other site 657309006277 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 657309006278 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657309006279 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657309006280 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657309006281 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 657309006282 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657309006283 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657309006284 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 657309006285 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 657309006286 MraW methylase family; Region: Methyltransf_5; cl17771 657309006287 cell division protein MraZ; Reviewed; Region: PRK00326 657309006288 MraZ protein; Region: MraZ; pfam02381 657309006289 MraZ protein; Region: MraZ; pfam02381 657309006290 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309006291 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309006292 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 657309006293 DNA binding residues [nucleotide binding] 657309006294 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 657309006295 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657309006296 putative acyl-acceptor binding pocket; other site 657309006297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 657309006298 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 657309006299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 657309006300 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 657309006301 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309006302 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309006303 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309006304 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 657309006305 dimer interface [polypeptide binding]; other site 657309006306 phosphorylation site [posttranslational modification] 657309006307 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 657309006308 ATP binding site [chemical binding]; other site 657309006309 Mg2+ binding site [ion binding]; other site 657309006310 G-X-G motif; other site 657309006311 Response regulator receiver domain; Region: Response_reg; pfam00072 657309006312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309006313 active site 657309006314 phosphorylation site [posttranslational modification] 657309006315 intermolecular recognition site; other site 657309006316 dimerization interface [polypeptide binding]; other site 657309006317 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657309006318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309006319 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 657309006320 active site 657309006321 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 657309006322 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006323 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006324 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006325 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309006326 SusD family; Region: SusD; pfam07980 657309006327 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309006328 Domain of unknown function (DUF4361); Region: DUF4361; pfam14274 657309006329 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309006330 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309006331 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309006332 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 657309006333 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 657309006334 trimer interface [polypeptide binding]; other site 657309006335 active site 657309006336 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 657309006337 binding surface 657309006338 TPR motif; other site 657309006339 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309006340 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309006341 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 657309006342 binding surface 657309006343 TPR motif; other site 657309006344 TPR repeat; Region: TPR_11; pfam13414 657309006345 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 657309006346 binding surface 657309006347 TPR motif; other site 657309006348 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 657309006349 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 657309006350 Peptidase family M23; Region: Peptidase_M23; pfam01551 657309006351 AAA domain; Region: AAA_14; pfam13173 657309006352 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309006353 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 657309006354 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 657309006355 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 657309006356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 657309006357 Alpha-2-macroglobulin family; Region: A2M; pfam00207 657309006358 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309006359 Sulfatase; Region: Sulfatase; pfam00884 657309006360 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309006361 Sulfatase; Region: Sulfatase; pfam00884 657309006362 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309006363 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309006364 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309006365 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 657309006366 active site 657309006367 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 657309006368 putative substrate binding site [chemical binding]; other site 657309006369 active site 657309006370 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 657309006371 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309006372 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657309006373 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006374 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006375 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006376 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 657309006377 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309006378 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309006379 SusD family; Region: SusD; pfam07980 657309006380 Protein of unknown function (DUF3823); Region: DUF3823; pfam12866 657309006381 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 657309006382 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 657309006383 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 657309006384 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309006385 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309006386 Uncharacterized conserved protein [Function unknown]; Region: COG3538 657309006387 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 657309006388 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657309006389 active site 657309006390 catalytic residues [active] 657309006391 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 657309006392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 657309006393 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657309006394 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657309006395 Virulence-associated protein E; Region: VirE; pfam05272 657309006396 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309006397 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309006398 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 657309006399 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309006400 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309006401 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309006402 catalytic residues [active] 657309006403 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 657309006404 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 657309006405 metal binding site [ion binding]; metal-binding site 657309006406 dimer interface [polypeptide binding]; other site 657309006407 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309006408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309006409 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 657309006410 DNA binding residues [nucleotide binding] 657309006411 FecR protein; Region: FecR; pfam04773 657309006412 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309006413 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006414 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006415 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 657309006416 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309006417 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309006418 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 657309006419 active site 657309006420 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309006421 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309006422 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 657309006423 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 657309006424 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309006425 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 657309006426 acyl-activating enzyme (AAE) consensus motif; other site 657309006427 putative AMP binding site [chemical binding]; other site 657309006428 putative active site [active] 657309006429 putative CoA binding site [chemical binding]; other site 657309006430 PCRF domain; Region: PCRF; pfam03462 657309006431 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 657309006432 RF-1 domain; Region: RF-1; pfam00472 657309006433 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 657309006434 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 657309006435 putative active site [active] 657309006436 putative metal binding residues [ion binding]; other site 657309006437 signature motif; other site 657309006438 putative dimer interface [polypeptide binding]; other site 657309006439 putative phosphate binding site [ion binding]; other site 657309006440 Predicted membrane protein [Function unknown]; Region: COG3174 657309006441 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 657309006442 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309006443 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 657309006444 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 657309006445 active site 657309006446 substrate binding site [chemical binding]; other site 657309006447 Mg2+ binding site [ion binding]; other site 657309006448 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309006449 putative catalytic site [active] 657309006450 putative metal binding site [ion binding]; other site 657309006451 putative phosphate binding site [ion binding]; other site 657309006452 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 657309006453 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 657309006454 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 657309006455 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 657309006456 active site 657309006457 substrate binding site [chemical binding]; other site 657309006458 Mg2+ binding site [ion binding]; other site 657309006459 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309006460 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309006461 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309006462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 657309006463 Putative glucoamylase; Region: Glycoamylase; pfam10091 657309006464 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309006465 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309006466 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309006467 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309006468 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309006469 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006470 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006471 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006472 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309006473 Ribokinase-like subgroup D. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_D; cd01937 657309006474 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657309006475 substrate binding site [chemical binding]; other site 657309006476 ATP binding site [chemical binding]; other site 657309006477 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 657309006478 salt bridge; other site 657309006479 non-specific DNA binding site [nucleotide binding]; other site 657309006480 sequence-specific DNA binding site [nucleotide binding]; other site 657309006481 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309006482 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 657309006483 amidase catalytic site [active] 657309006484 Zn binding residues [ion binding]; other site 657309006485 substrate binding site [chemical binding]; other site 657309006486 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309006487 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 657309006488 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309006489 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 657309006490 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657309006491 active site 657309006492 DNA binding site [nucleotide binding] 657309006493 Int/Topo IB signature motif; other site 657309006494 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 657309006495 active site triad [active] 657309006496 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 657309006497 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 657309006498 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; cl00148 657309006499 CAP-like domain; other site 657309006500 active site 657309006501 primary dimer interface [polypeptide binding]; other site 657309006502 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 657309006503 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 657309006504 putative substrate translocation pore; other site 657309006505 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309006506 SusD family; Region: SusD; pfam07980 657309006507 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309006508 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006509 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006510 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006511 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309006512 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309006513 FecR protein; Region: FecR; pfam04773 657309006514 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 657309006515 active site 657309006516 catalytic triad [active] 657309006517 oxyanion hole [active] 657309006518 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309006519 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309006520 putative active site [active] 657309006521 catalytic site [active] 657309006522 putative metal binding site [ion binding]; other site 657309006523 oligomer interface [polypeptide binding]; other site 657309006524 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309006525 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 657309006526 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309006527 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309006528 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 657309006529 DNA binding residues [nucleotide binding] 657309006530 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 657309006531 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309006532 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309006533 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309006534 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309006535 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657309006536 ApbE family; Region: ApbE; pfam02424 657309006537 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309006538 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309006539 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309006540 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 657309006541 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 657309006542 active site 657309006543 trimer interface [polypeptide binding]; other site 657309006544 allosteric site; other site 657309006545 active site lid [active] 657309006546 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657309006547 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 657309006548 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 657309006549 active site 657309006550 dimer interface [polypeptide binding]; other site 657309006551 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 657309006552 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 657309006553 putative substrate translocation pore; other site 657309006554 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657309006555 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309006556 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309006557 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 657309006558 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 657309006559 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309006560 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309006561 SusD family; Region: SusD; pfam07980 657309006562 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006563 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006564 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006565 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 657309006566 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657309006567 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657309006568 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309006569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309006570 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309006571 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657309006572 AAA domain; Region: AAA_14; pfam13173 657309006573 glycyl-tRNA synthetase; Provisional; Region: PRK04173 657309006574 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 657309006575 motif 1; other site 657309006576 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 657309006577 active site 657309006578 motif 2; other site 657309006579 motif 3; other site 657309006580 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 657309006581 anticodon binding site; other site 657309006582 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657309006583 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657309006584 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657309006585 DNA binding site [nucleotide binding] 657309006586 domain linker motif; other site 657309006587 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 657309006588 dimerization interface [polypeptide binding]; other site 657309006589 ligand binding site [chemical binding]; other site 657309006590 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 657309006591 active site 657309006592 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657309006593 catalytic tetrad [active] 657309006594 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 657309006595 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 657309006596 active site 657309006597 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 657309006598 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309006599 putative substrate translocation pore; other site 657309006600 glucose/galactose transporter; Region: gluP; TIGR01272 657309006601 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657309006602 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 657309006603 putative NAD(P) binding site [chemical binding]; other site 657309006604 catalytic Zn binding site [ion binding]; other site 657309006605 structural Zn binding site [ion binding]; other site 657309006606 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657309006607 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 657309006608 active site 657309006609 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657309006610 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309006611 PA14 domain; Region: PA14; cl08459 657309006612 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309006613 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657309006614 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 657309006615 inhibitor binding site; inhibition site 657309006616 active site 657309006617 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657309006618 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657309006619 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 657309006620 putative active site [active] 657309006621 putative catalytic site [active] 657309006622 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 657309006623 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 657309006624 substrate binding site [chemical binding]; other site 657309006625 active site 657309006626 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 657309006627 metal binding site [ion binding]; metal-binding site 657309006628 ligand binding site [chemical binding]; other site 657309006629 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309006630 active site 657309006631 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006632 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006633 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006634 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309006635 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 657309006636 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309006637 SusD family; Region: SusD; pfam07980 657309006638 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006639 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309006640 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309006641 SusD family; Region: SusD; pfam07980 657309006642 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309006643 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 657309006644 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 657309006645 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657309006646 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309006647 N-terminal Early set domain associated with the catalytic domain of esterase; Region: E_set_Esterase_N; cd02858 657309006648 Putative esterase; Region: Esterase; pfam00756 657309006649 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657309006650 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 657309006651 substrate binding site [chemical binding]; other site 657309006652 active site 657309006653 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 657309006654 metal binding site [ion binding]; metal-binding site 657309006655 ligand binding site [chemical binding]; other site 657309006656 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309006657 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309006658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309006659 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 657309006660 dimer interface [polypeptide binding]; other site 657309006661 phosphorylation site [posttranslational modification] 657309006662 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 657309006663 ATP binding site [chemical binding]; other site 657309006664 Mg2+ binding site [ion binding]; other site 657309006665 G-X-G motif; other site 657309006666 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657309006667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309006668 active site 657309006669 phosphorylation site [posttranslational modification] 657309006670 intermolecular recognition site; other site 657309006671 dimerization interface [polypeptide binding]; other site 657309006672 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309006673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309006674 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 657309006675 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 657309006676 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 657309006677 putative active site [active] 657309006678 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 657309006679 muropeptide transporter; Validated; Region: ampG; cl17669 657309006680 Stage II sporulation protein; Region: SpoIID; pfam08486 657309006681 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 657309006682 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657309006683 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 657309006684 active site 657309006685 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 657309006686 Na binding site [ion binding]; other site 657309006687 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657309006688 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657309006689 Walker A/P-loop; other site 657309006690 ATP binding site [chemical binding]; other site 657309006691 Q-loop/lid; other site 657309006692 ABC transporter signature motif; other site 657309006693 Walker B; other site 657309006694 D-loop; other site 657309006695 H-loop/switch region; other site 657309006696 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 657309006697 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 657309006698 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309006699 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309006700 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 657309006701 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 657309006702 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006703 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 657309006704 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309006705 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 657309006706 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657309006707 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657309006708 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657309006709 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 657309006710 Ligand Binding Site [chemical binding]; other site 657309006711 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 657309006712 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 657309006713 putative ATP binding site [chemical binding]; other site 657309006714 putative substrate interface [chemical binding]; other site 657309006715 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309006716 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657309006717 Walker A/P-loop; other site 657309006718 ATP binding site [chemical binding]; other site 657309006719 Q-loop/lid; other site 657309006720 ABC transporter signature motif; other site 657309006721 Walker B; other site 657309006722 D-loop; other site 657309006723 H-loop/switch region; other site 657309006724 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 657309006725 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 657309006726 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 657309006727 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657309006728 Na2 binding site [ion binding]; other site 657309006729 putative substrate binding site 1 [chemical binding]; other site 657309006730 Na binding site 1 [ion binding]; other site 657309006731 putative substrate binding site 2 [chemical binding]; other site 657309006732 Predicted integral membrane protein [Function unknown]; Region: COG5652 657309006733 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657309006734 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 657309006735 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657309006736 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657309006737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309006738 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 657309006739 dimer interface [polypeptide binding]; other site 657309006740 phosphorylation site [posttranslational modification] 657309006741 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 657309006742 ATP binding site [chemical binding]; other site 657309006743 Mg2+ binding site [ion binding]; other site 657309006744 G-X-G motif; other site 657309006745 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 657309006746 dihydropteroate synthase; Region: DHPS; TIGR01496 657309006747 substrate binding pocket [chemical binding]; other site 657309006748 dimer interface [polypeptide binding]; other site 657309006749 inhibitor binding site; inhibition site 657309006750 Uncharacterized conserved protein [Function unknown]; Region: COG1624 657309006751 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 657309006752 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 657309006753 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309006754 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309006755 active site 657309006756 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 657309006757 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 657309006758 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 657309006759 active site 657309006760 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 657309006761 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 657309006762 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 657309006763 LrgB-like family; Region: LrgB; pfam04172 657309006764 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 657309006765 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 657309006766 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 657309006767 propionate/acetate kinase; Provisional; Region: PRK12379 657309006768 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309006769 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657309006770 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 657309006771 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 657309006772 active site 657309006773 catalytic residues [active] 657309006774 DNA binding site [nucleotide binding] 657309006775 Int/Topo IB signature motif; other site 657309006776 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657309006777 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 657309006778 active site 657309006779 hypothetical protein; Reviewed; Region: PRK00024 657309006780 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657309006781 MPN+ (JAMM) motif; other site 657309006782 Zinc-binding site [ion binding]; other site 657309006783 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 657309006784 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 657309006785 putative active site [active] 657309006786 putative metal binding site [ion binding]; other site 657309006787 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309006788 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309006789 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309006790 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006791 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006792 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006793 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309006794 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309006795 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 657309006796 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 657309006797 rRNA interaction site [nucleotide binding]; other site 657309006798 S8 interaction site; other site 657309006799 putative laminin-1 binding site; other site 657309006800 elongation factor Ts; Provisional; Region: tsf; PRK09377 657309006801 UBA/TS-N domain; Region: UBA; pfam00627 657309006802 Elongation factor TS; Region: EF_TS; pfam00889 657309006803 Elongation factor TS; Region: EF_TS; pfam00889 657309006804 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309006805 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309006806 catalytic residues [active] 657309006807 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 657309006808 putative rRNA binding site [nucleotide binding]; other site 657309006809 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 657309006810 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 657309006811 CoA binding domain; Region: CoA_binding; pfam02629 657309006812 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 657309006813 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 657309006814 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 657309006815 homotrimer interaction site [polypeptide binding]; other site 657309006816 zinc binding site [ion binding]; other site 657309006817 CDP-binding sites; other site 657309006818 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 657309006819 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309006820 putative active site [active] 657309006821 putative metal binding site [ion binding]; other site 657309006822 tRNA-specific 2-thiouridylase MnmA; Provisional; Region: PRK14664 657309006823 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 657309006824 Ligand Binding Site [chemical binding]; other site 657309006825 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 657309006826 active site 657309006827 catalytic triad [active] 657309006828 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 657309006829 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 657309006830 generic binding surface II; other site 657309006831 generic binding surface I; other site 657309006832 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 657309006833 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 657309006834 homodimer interface [polypeptide binding]; other site 657309006835 substrate-cofactor binding pocket; other site 657309006836 catalytic residue [active] 657309006837 Protein of unknown function (DUF975); Region: DUF975; cl10504 657309006838 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 657309006839 Domain of unknown function DUF59; Region: DUF59; pfam01883 657309006840 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 657309006841 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309006842 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309006843 catalytic residues [active] 657309006844 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 657309006845 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 657309006846 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309006847 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 657309006848 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309006849 Penicillinase repressor; Region: Pencillinase_R; pfam03965 657309006850 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309006851 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 657309006852 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 657309006853 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657309006854 ABC-2 type transporter; Region: ABC2_membrane; cl17235 657309006855 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 657309006856 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 657309006857 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309006858 Outer membrane efflux protein; Region: OEP; pfam02321 657309006859 Outer membrane efflux protein; Region: OEP; pfam02321 657309006860 malate dehydrogenase; Reviewed; Region: PRK06223 657309006861 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 657309006862 dimer interface [polypeptide binding]; other site 657309006863 NAD(P) binding site [chemical binding]; other site 657309006864 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657309006865 substrate binding site [chemical binding]; other site 657309006866 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309006867 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309006868 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 657309006869 DNA binding residues [nucleotide binding] 657309006870 FecR protein; Region: FecR; pfam04773 657309006871 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309006872 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309006873 SusD family; Region: SusD; pfam07980 657309006874 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 657309006875 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 657309006876 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 657309006877 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 657309006878 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 657309006879 ATP-NAD kinase; Region: NAD_kinase; pfam01513 657309006880 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 657309006881 active site 657309006882 hydrophilic channel; other site 657309006883 dimerization interface [polypeptide binding]; other site 657309006884 catalytic residues [active] 657309006885 active site lid [active] 657309006886 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 657309006887 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 657309006888 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 657309006889 DJ-1 family protein; Region: not_thiJ; TIGR01383 657309006890 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 657309006891 conserved cys residue [active] 657309006892 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657309006893 substrate binding site; other site 657309006894 dimer interface; other site 657309006895 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 657309006896 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 657309006897 generic binding surface II; other site 657309006898 ssDNA binding site; other site 657309006899 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 657309006900 ATP binding site [chemical binding]; other site 657309006901 putative Mg++ binding site [ion binding]; other site 657309006902 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 657309006903 nucleotide binding region [chemical binding]; other site 657309006904 ATP-binding site [chemical binding]; other site 657309006905 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 657309006906 active site 657309006907 multimer interface [polypeptide binding]; other site 657309006908 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657309006909 Peptidase family M23; Region: Peptidase_M23; pfam01551 657309006910 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309006911 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 657309006912 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 657309006913 triosephosphate isomerase; Provisional; Region: PRK14567 657309006914 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 657309006915 substrate binding site [chemical binding]; other site 657309006916 dimer interface [polypeptide binding]; other site 657309006917 catalytic triad [active] 657309006918 Sporulation related domain; Region: SPOR; pfam05036 657309006919 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 657309006920 homodecamer interface [polypeptide binding]; other site 657309006921 GTP cyclohydrolase I; Provisional; Region: PLN03044 657309006922 active site 657309006923 putative catalytic site residues [active] 657309006924 zinc binding site [ion binding]; other site 657309006925 GTP-CH-I/GFRP interaction surface; other site 657309006926 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 657309006927 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309006928 prephenate dehydrogenase; Validated; Region: PRK08507 657309006929 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 657309006930 Chorismate mutase type II; Region: CM_2; smart00830 657309006931 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 657309006932 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 657309006933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309006934 homodimer interface [polypeptide binding]; other site 657309006935 catalytic residue [active] 657309006936 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 657309006937 Prephenate dehydratase; Region: PDT; pfam00800 657309006938 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 657309006939 putative L-Phe binding site [chemical binding]; other site 657309006940 Transposase IS200 like; Region: Y1_Tnp; pfam01797 657309006941 TPR repeat; Region: TPR_11; pfam13414 657309006942 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 657309006943 binding surface 657309006944 TPR motif; other site 657309006945 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 657309006946 TPR motif; other site 657309006947 binding surface 657309006948 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 657309006949 binding surface 657309006950 TPR motif; other site 657309006951 TPR repeat; Region: TPR_11; pfam13414 657309006952 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657309006953 DHH family; Region: DHH; pfam01368 657309006954 DHHA1 domain; Region: DHHA1; pfam02272 657309006955 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309006956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309006957 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 657309006958 DNA binding residues [nucleotide binding] 657309006959 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309006960 FecR protein; Region: FecR; pfam04773 657309006961 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309006962 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309006963 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309006964 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309006965 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 657309006966 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309006967 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309006968 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309006969 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309006970 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 657309006971 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 657309006972 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 657309006973 active site 657309006974 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 657309006975 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 657309006976 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657309006977 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 657309006978 Cl- selectivity filter; other site 657309006979 Cl- binding residues [ion binding]; other site 657309006980 pore gating glutamate residue; other site 657309006981 dimer interface [polypeptide binding]; other site 657309006982 FOG: CBS domain [General function prediction only]; Region: COG0517 657309006983 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 657309006984 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 657309006985 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 657309006986 putative active site [active] 657309006987 substrate binding site [chemical binding]; other site 657309006988 putative cosubstrate binding site; other site 657309006989 catalytic site [active] 657309006990 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 657309006991 substrate binding site [chemical binding]; other site 657309006992 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 657309006993 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 657309006994 substrate binding site [chemical binding]; other site 657309006995 hexamer interface [polypeptide binding]; other site 657309006996 metal binding site [ion binding]; metal-binding site 657309006997 Competence protein; Region: Competence; pfam03772 657309006998 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657309006999 DHH family; Region: DHH; pfam01368 657309007000 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 657309007001 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 657309007002 active site 657309007003 substrate binding site [chemical binding]; other site 657309007004 metal binding site [ion binding]; metal-binding site 657309007005 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309007006 cheY-homologous receiver domain; Region: REC; smart00448 657309007007 phosphorylation site [posttranslational modification] 657309007008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309007009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007010 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007011 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007012 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007013 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 657309007014 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309007015 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309007016 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007017 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007018 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007019 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007020 Peptidase of plants and bacteria; Region: BSP; pfam04450 657309007021 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007022 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007023 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657309007024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007025 active site 657309007026 phosphorylation site [posttranslational modification] 657309007027 intermolecular recognition site; other site 657309007028 dimerization interface [polypeptide binding]; other site 657309007029 LytTr DNA-binding domain; Region: LytTR; smart00850 657309007030 Histidine kinase; Region: His_kinase; pfam06580 657309007031 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309007032 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309007033 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 657309007034 Outer membrane efflux protein; Region: OEP; pfam02321 657309007035 Outer membrane efflux protein; Region: OEP; pfam02321 657309007036 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 657309007037 catalytic residues [active] 657309007038 dimer interface [polypeptide binding]; other site 657309007039 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 657309007040 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_34; cd04693 657309007041 nudix motif; other site 657309007042 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 657309007043 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 657309007044 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 657309007045 active site 657309007046 DNA binding site [nucleotide binding] 657309007047 Int/Topo IB signature motif; other site 657309007048 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309007049 Bacterial SH3 domain; Region: SH3_3; cl17532 657309007050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309007051 HD domain; Region: HD_4; pfam13328 657309007052 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 657309007053 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309007054 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 657309007055 active site 657309007056 dimer interface [polypeptide binding]; other site 657309007057 metal binding site [ion binding]; metal-binding site 657309007058 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007059 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 657309007060 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 657309007061 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 657309007062 putative active site [active] 657309007063 catalytic site [active] 657309007064 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 657309007065 putative active site [active] 657309007066 catalytic site [active] 657309007067 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 657309007068 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 657309007069 S-adenosylmethionine binding site [chemical binding]; other site 657309007070 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 657309007071 AAA domain; Region: AAA_30; pfam13604 657309007072 Family description; Region: UvrD_C_2; pfam13538 657309007073 Secretin and TonB N terminus short domain; Region: STN; smart00965 657309007074 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007075 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007076 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 657309007077 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 657309007078 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309007079 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309007080 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657309007081 active site 657309007082 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309007083 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309007084 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309007085 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 657309007086 active site 657309007087 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309007088 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007089 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007090 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007091 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007092 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309007093 FecR protein; Region: FecR; pfam04773 657309007094 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309007095 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309007096 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 657309007097 DNA binding residues [nucleotide binding] 657309007098 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007099 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007100 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 657309007101 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 657309007102 motif 1; other site 657309007103 active site 657309007104 motif 2; other site 657309007105 motif 3; other site 657309007106 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657309007107 DHHA1 domain; Region: DHHA1; pfam02272 657309007108 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657309007109 Peptidase family M23; Region: Peptidase_M23; pfam01551 657309007110 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 657309007111 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657309007112 DNA binding residues [nucleotide binding] 657309007113 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657309007114 HD domain; Region: HD_4; pfam13328 657309007115 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657309007116 synthetase active site [active] 657309007117 NTP binding site [chemical binding]; other site 657309007118 metal binding site [ion binding]; metal-binding site 657309007119 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 657309007120 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 657309007121 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 657309007122 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 657309007123 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657309007124 catalytic residue [active] 657309007125 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309007126 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657309007127 ParB-like nuclease domain; Region: ParBc; pfam02195 657309007128 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657309007129 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 657309007130 P-loop; other site 657309007131 Magnesium ion binding site [ion binding]; other site 657309007132 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 657309007133 Magnesium ion binding site [ion binding]; other site 657309007134 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 657309007135 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 657309007136 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 657309007137 NigD-like protein; Region: NigD; pfam12667 657309007138 FtsH Extracellular; Region: FtsH_ext; pfam06480 657309007139 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 657309007140 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 657309007141 Walker A motif; other site 657309007142 ATP binding site [chemical binding]; other site 657309007143 Walker B motif; other site 657309007144 arginine finger; other site 657309007145 Peptidase family M41; Region: Peptidase_M41; pfam01434 657309007146 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 657309007147 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 657309007148 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 657309007149 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 657309007150 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 657309007151 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 657309007152 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 657309007153 MgtE intracellular N domain; Region: MgtE_N; smart00924 657309007154 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 657309007155 Divalent cation transporter; Region: MgtE; pfam01769 657309007156 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 657309007157 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 657309007158 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 657309007159 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 657309007160 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 657309007161 metal binding site [ion binding]; metal-binding site 657309007162 dimer interface [polypeptide binding]; other site 657309007163 MG2 domain; Region: A2M_N; pfam01835 657309007164 Alpha-2-macroglobulin family; Region: A2M; pfam00207 657309007165 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 657309007166 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 657309007167 membrane ATPase/protein kinase; Provisional; Region: PRK09435 657309007168 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 657309007169 Walker A; other site 657309007170 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657309007171 EamA-like transporter family; Region: EamA; pfam00892 657309007172 EamA-like transporter family; Region: EamA; pfam00892 657309007173 AAA domain; Region: AAA_21; pfam13304 657309007174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 657309007175 ABC transporter signature motif; other site 657309007176 Walker B; other site 657309007177 D-loop; other site 657309007178 H-loop/switch region; other site 657309007179 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657309007180 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657309007181 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657309007182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007184 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309007185 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309007186 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007187 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 657309007188 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 657309007189 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 657309007190 GAF domain; Region: GAF; pfam01590 657309007191 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 657309007192 PAS fold; Region: PAS_3; pfam08447 657309007193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309007194 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 657309007195 dimer interface [polypeptide binding]; other site 657309007196 phosphorylation site [posttranslational modification] 657309007197 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 657309007198 ATP binding site [chemical binding]; other site 657309007199 Mg2+ binding site [ion binding]; other site 657309007200 G-X-G motif; other site 657309007201 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 657309007202 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 657309007203 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 657309007204 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 657309007205 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 657309007206 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 657309007207 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 657309007208 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 657309007209 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 657309007210 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 657309007211 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 657309007212 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657309007213 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 657309007214 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 657309007215 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 657309007216 NADH dehydrogenase subunit D; Validated; Region: PRK06075 657309007217 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 657309007218 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 657309007219 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 657309007220 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309007221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309007222 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 657309007223 DNA binding residues [nucleotide binding] 657309007224 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 657309007225 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 657309007226 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 657309007227 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007228 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007229 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309007230 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309007231 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309007232 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309007233 sugar binding site [chemical binding]; other site 657309007234 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 657309007235 active site 657309007236 catalytic triad [active] 657309007237 oxyanion hole [active] 657309007238 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657309007239 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309007240 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309007241 SusD family; Region: SusD; pfam07980 657309007242 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007243 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007244 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007245 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309007246 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309007247 active site 657309007248 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309007249 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309007250 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309007251 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007252 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007253 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007254 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007255 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 657309007256 active site 657309007257 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 657309007258 active site 657309007259 catalytic triad [active] 657309007260 oxyanion hole [active] 657309007261 Cation transport protein; Region: TrkH; cl17365 657309007262 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657309007263 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 657309007264 TrkA-N domain; Region: TrkA_N; pfam02254 657309007265 TrkA-C domain; Region: TrkA_C; pfam02080 657309007266 TrkA-N domain; Region: TrkA_N; pfam02254 657309007267 TrkA-C domain; Region: TrkA_C; pfam02080 657309007268 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 657309007269 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 657309007270 TPP-binding site; other site 657309007271 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 657309007272 PYR/PP interface [polypeptide binding]; other site 657309007273 dimer interface [polypeptide binding]; other site 657309007274 TPP binding site [chemical binding]; other site 657309007275 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657309007276 GSCFA family; Region: GSCFA; pfam08885 657309007277 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 657309007278 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657309007279 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657309007280 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 657309007281 active site 657309007282 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657309007283 dimer interface [polypeptide binding]; other site 657309007284 substrate binding site [chemical binding]; other site 657309007285 catalytic residues [active] 657309007286 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 657309007287 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 657309007288 AAA domain; Region: AAA_11; pfam13086 657309007289 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 657309007290 ATP binding site [chemical binding]; other site 657309007291 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 657309007292 putative Mg++ binding site [ion binding]; other site 657309007293 AAA domain; Region: AAA_12; pfam13087 657309007294 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 657309007295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309007296 putative substrate translocation pore; other site 657309007297 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 657309007298 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 657309007299 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 657309007300 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309007301 putative pectinesterase; Region: PLN02432; cl01911 657309007302 Pectinesterase; Region: Pectinesterase; pfam01095 657309007303 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 657309007304 active site 657309007305 catalytic triad [active] 657309007306 putative pectinesterase; Region: PLN02432; cl01911 657309007307 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 657309007308 Walker A motif; other site 657309007309 ATP binding site [chemical binding]; other site 657309007310 Walker B motif; other site 657309007311 arginine finger; other site 657309007312 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309007313 Nuclease-related domain; Region: NERD; pfam08378 657309007314 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309007315 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309007316 Two component regulator propeller; Region: Reg_prop; pfam07494 657309007317 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309007318 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309007319 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 657309007320 dimer interface [polypeptide binding]; other site 657309007321 phosphorylation site [posttranslational modification] 657309007322 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 657309007323 ATP binding site [chemical binding]; other site 657309007324 Mg2+ binding site [ion binding]; other site 657309007325 G-X-G motif; other site 657309007326 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309007327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007328 active site 657309007329 phosphorylation site [posttranslational modification] 657309007330 intermolecular recognition site; other site 657309007331 dimerization interface [polypeptide binding]; other site 657309007332 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309007333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007334 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657309007335 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309007336 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309007337 SusD family; Region: SusD; pfam07980 657309007338 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007339 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007340 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007341 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309007342 Pectate lyase; Region: Pec_lyase_C; cl01593 657309007343 Pectate lyase; Region: Pec_lyase_C; cl01593 657309007344 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 657309007345 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657309007346 LytTr DNA-binding domain; Region: LytTR; pfam04397 657309007347 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 657309007348 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657309007349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657309007350 Flavodoxin; Region: Flavodoxin_1; pfam00258 657309007351 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 657309007352 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 657309007353 active site 657309007354 trimer interface [polypeptide binding]; other site 657309007355 allosteric site; other site 657309007356 active site lid [active] 657309007357 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657309007358 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 657309007359 Family of unknown function (DUF490); Region: DUF490; pfam04357 657309007360 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 657309007361 PIF1-like helicase; Region: PIF1; pfam05970 657309007362 AAA domain; Region: AAA_30; pfam13604 657309007363 Family description; Region: UvrD_C_2; pfam13538 657309007364 TPR repeat; Region: TPR_11; pfam13414 657309007365 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 657309007366 binding surface 657309007367 TPR motif; other site 657309007368 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309007369 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 657309007370 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657309007371 active site 657309007372 motif I; other site 657309007373 motif II; other site 657309007374 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 657309007375 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 657309007376 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 657309007377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309007378 homodimer interface [polypeptide binding]; other site 657309007379 catalytic residue [active] 657309007380 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657309007381 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007382 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 657309007383 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_1; cd11747 657309007384 homodimer interface [polypeptide binding]; other site 657309007385 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 657309007386 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007387 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 657309007388 active site 657309007389 catalytic triad [active] 657309007390 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309007391 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309007392 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309007393 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309007394 active site 657309007395 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657309007396 active site 657309007397 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309007398 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 657309007399 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 657309007400 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 657309007401 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007402 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 657309007403 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007404 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 657309007405 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657309007406 active site 657309007407 catalytic triad [active] 657309007408 oxyanion hole [active] 657309007409 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309007410 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309007411 SusD family; Region: SusD; pfam07980 657309007412 SusD family; Region: SusD; pfam07980 657309007413 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007414 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007415 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007416 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309007417 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309007418 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309007419 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 657309007420 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309007421 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309007422 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007423 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007424 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309007425 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309007426 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309007427 SusD family; Region: SusD; pfam07980 657309007428 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007429 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007430 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007431 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309007432 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309007433 SusD family; Region: SusD; pfam07980 657309007434 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 657309007435 metal binding site [ion binding]; metal-binding site 657309007436 active site 657309007437 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 657309007438 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 657309007439 active site 657309007440 catalytic triad [active] 657309007441 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 657309007442 active site 657309007443 catalytic triad [active] 657309007444 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309007445 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 657309007446 metal binding site [ion binding]; metal-binding site 657309007447 active site 657309007448 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309007449 Domain of unknown function (DUF718); Region: DUF718; pfam05336 657309007450 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309007451 Two component regulator propeller; Region: Reg_prop; pfam07494 657309007452 Two component regulator propeller; Region: Reg_prop; pfam07494 657309007453 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309007454 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309007455 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 657309007456 dimer interface [polypeptide binding]; other site 657309007457 phosphorylation site [posttranslational modification] 657309007458 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 657309007459 ATP binding site [chemical binding]; other site 657309007460 Mg2+ binding site [ion binding]; other site 657309007461 G-X-G motif; other site 657309007462 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309007463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007464 active site 657309007465 phosphorylation site [posttranslational modification] 657309007466 intermolecular recognition site; other site 657309007467 dimerization interface [polypeptide binding]; other site 657309007468 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309007469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007470 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 657309007471 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 657309007472 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 657309007473 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309007474 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309007475 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309007476 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 657309007477 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 657309007478 metal binding site [ion binding]; metal-binding site 657309007479 active site 657309007480 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007481 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 657309007482 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 657309007483 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309007484 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 657309007485 Glycosyl hydrolase 43-like family consists of hypothetical proteins; Region: GH43_like_2; cd08994 657309007486 active site 657309007487 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309007488 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309007489 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309007490 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 657309007491 dimer interface [polypeptide binding]; other site 657309007492 phosphorylation site [posttranslational modification] 657309007493 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 657309007494 ATP binding site [chemical binding]; other site 657309007495 Mg2+ binding site [ion binding]; other site 657309007496 G-X-G motif; other site 657309007497 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309007498 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007499 active site 657309007500 phosphorylation site [posttranslational modification] 657309007501 intermolecular recognition site; other site 657309007502 dimerization interface [polypeptide binding]; other site 657309007503 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309007504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007505 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007506 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007507 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007508 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 657309007509 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309007510 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309007511 SusD family; Region: SusD; pfam07980 657309007512 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 657309007513 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309007514 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309007515 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309007516 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 657309007517 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309007518 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 657309007519 metal binding site [ion binding]; metal-binding site 657309007520 active site 657309007521 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 657309007522 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007523 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309007524 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309007525 Fasciclin domain; Region: Fasciclin; cl02663 657309007526 Fasciclin domain; Region: Fasciclin; cl02663 657309007527 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007528 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007529 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309007530 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309007531 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309007532 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309007533 Fasciclin domain; Region: Fasciclin; pfam02469 657309007534 Fasciclin domain; Region: Fasciclin; cl02663 657309007535 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007536 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007537 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007538 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 657309007539 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 657309007540 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 657309007541 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 657309007542 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007543 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309007544 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309007545 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 657309007546 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309007547 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309007548 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309007549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309007550 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 657309007551 dimer interface [polypeptide binding]; other site 657309007552 phosphorylation site [posttranslational modification] 657309007553 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 657309007554 ATP binding site [chemical binding]; other site 657309007555 Mg2+ binding site [ion binding]; other site 657309007556 G-X-G motif; other site 657309007557 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309007558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007559 active site 657309007560 phosphorylation site [posttranslational modification] 657309007561 intermolecular recognition site; other site 657309007562 dimerization interface [polypeptide binding]; other site 657309007563 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309007564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309007565 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309007566 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657309007567 active site 657309007568 NTP binding site [chemical binding]; other site 657309007569 metal binding triad [ion binding]; metal-binding site 657309007570 antibiotic binding site [chemical binding]; other site 657309007571 HEPN domain; Region: HEPN; cl00824 657309007572 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657309007573 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 657309007574 motif II; other site 657309007575 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657309007576 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 657309007577 active site 657309007578 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 657309007579 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 657309007580 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 657309007581 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 657309007582 NAD binding site [chemical binding]; other site 657309007583 homotetramer interface [polypeptide binding]; other site 657309007584 homodimer interface [polypeptide binding]; other site 657309007585 substrate binding site [chemical binding]; other site 657309007586 active site 657309007587 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 657309007588 lipoyl synthase; Provisional; Region: PRK05481 657309007589 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 657309007590 FeS/SAM binding site; other site 657309007591 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 657309007592 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309007593 Penicillinase repressor; Region: Pencillinase_R; pfam03965 657309007594 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 657309007595 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309007596 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 657309007597 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 657309007598 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 657309007599 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 657309007600 active site 657309007601 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 657309007602 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 657309007603 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 657309007604 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 657309007605 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 657309007606 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 657309007607 trimer interface [polypeptide binding]; other site 657309007608 active site 657309007609 UDP-GlcNAc binding site [chemical binding]; other site 657309007610 lipid binding site [chemical binding]; lipid-binding site 657309007611 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 657309007612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657309007613 Zn2+ binding site [ion binding]; other site 657309007614 Mg2+ binding site [ion binding]; other site 657309007615 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 657309007616 active site 657309007617 dimer interface [polypeptide binding]; other site 657309007618 peptide chain release factor 1; Validated; Region: prfA; PRK00591 657309007619 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657309007620 RF-1 domain; Region: RF-1; pfam00472 657309007621 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 657309007622 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 657309007623 dimerization interface [polypeptide binding]; other site 657309007624 ATP binding site [chemical binding]; other site 657309007625 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 657309007626 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 657309007627 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 657309007628 Repair protein; Region: Repair_PSII; pfam04536 657309007629 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657309007630 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 657309007631 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657309007632 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 657309007633 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657309007634 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 657309007635 shikimate binding site; other site 657309007636 NAD(P) binding site [chemical binding]; other site 657309007637 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 657309007638 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 657309007639 S-adenosylmethionine binding site [chemical binding]; other site 657309007640 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 657309007641 ATP binding site [chemical binding]; other site 657309007642 active site 657309007643 substrate binding site [chemical binding]; other site 657309007644 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 657309007645 PhoH-like protein; Region: PhoH; pfam02562 657309007646 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 657309007647 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 657309007648 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657309007649 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 657309007650 EamA-like transporter family; Region: EamA; cl17759 657309007651 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 657309007652 Phosphotransferase enzyme family; Region: APH; pfam01636 657309007653 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 657309007654 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657309007655 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309007656 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309007657 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309007658 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657309007659 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657309007660 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657309007661 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657309007662 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657309007663 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657309007664 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657309007665 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 657309007666 homopentamer interface [polypeptide binding]; other site 657309007667 active site 657309007668 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 657309007669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309007670 Walker A/P-loop; other site 657309007671 ATP binding site [chemical binding]; other site 657309007672 Q-loop/lid; other site 657309007673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309007674 ABC transporter signature motif; other site 657309007675 Walker B; other site 657309007676 D-loop; other site 657309007677 H-loop/switch region; other site 657309007678 Protein of unknown function (DUF721); Region: DUF721; pfam05258 657309007679 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657309007680 active site 657309007681 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 657309007682 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 657309007683 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657309007684 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657309007685 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 657309007686 protein binding site [polypeptide binding]; other site 657309007687 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 657309007688 Catalytic dyad [active] 657309007689 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 657309007690 catalytic motif [active] 657309007691 Zn binding site [ion binding]; other site 657309007692 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 657309007693 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 657309007694 active site 657309007695 Zn binding site [ion binding]; other site 657309007696 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 657309007697 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 657309007698 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 657309007699 GMP synthase; Reviewed; Region: guaA; PRK00074 657309007700 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 657309007701 AMP/PPi binding site [chemical binding]; other site 657309007702 candidate oxyanion hole; other site 657309007703 catalytic triad [active] 657309007704 potential glutamine specificity residues [chemical binding]; other site 657309007705 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 657309007706 ATP Binding subdomain [chemical binding]; other site 657309007707 Ligand Binding sites [chemical binding]; other site 657309007708 Dimerization subdomain; other site 657309007709 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309007710 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 657309007711 ligand binding site [chemical binding]; other site 657309007712 flexible hinge region; other site 657309007713 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 657309007714 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 657309007715 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309007716 PcfK-like protein; Region: PcfK; pfam14058 657309007717 PcfJ-like protein; Region: PcfJ; pfam14284 657309007718 Domain of unknown function, B. Theta Gene description (DUF3873); Region: DUF3873; pfam12989 657309007719 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 657309007720 catalytic residue [active] 657309007721 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 657309007722 CHC2 zinc finger; Region: zf-CHC2; cl17510 657309007723 Toprim-like; Region: Toprim_2; pfam13155 657309007724 Conjugative transposon protein TraO; Region: TraO; pfam10626 657309007725 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 657309007726 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 657309007727 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 657309007728 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 657309007729 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 657309007730 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 657309007731 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 657309007732 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 657309007733 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 657309007734 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 657309007735 C2 domain; Region: C2; cl14603 657309007736 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 657309007737 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309007738 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309007739 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309007740 YWFCY protein; Region: YWFCY; pfam14293 657309007741 AAA-like domain; Region: AAA_10; pfam12846 657309007742 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657309007743 Transposase, Mutator family; Region: Transposase_mut; pfam00872 657309007744 MULE transposase domain; Region: MULE; pfam10551 657309007745 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 657309007746 Part of AAA domain; Region: AAA_19; pfam13245 657309007747 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 657309007748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309007749 Walker A/P-loop; other site 657309007750 ATP binding site [chemical binding]; other site 657309007751 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 657309007752 putative active site [active] 657309007753 putative metal-binding site [ion binding]; other site 657309007754 AAA domain; Region: AAA_14; pfam13173 657309007755 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309007756 RteC protein; Region: RteC; pfam09357 657309007757 RibD C-terminal domain; Region: RibD_C; cl17279 657309007758 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309007759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007760 active site 657309007761 phosphorylation site [posttranslational modification] 657309007762 intermolecular recognition site; other site 657309007763 dimerization interface [polypeptide binding]; other site 657309007764 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 657309007765 Walker A motif; other site 657309007766 ATP binding site [chemical binding]; other site 657309007767 Walker B motif; other site 657309007768 arginine finger; other site 657309007769 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309007770 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309007771 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 657309007772 dimer interface [polypeptide binding]; other site 657309007773 phosphorylation site [posttranslational modification] 657309007774 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 657309007775 ATP binding site [chemical binding]; other site 657309007776 Mg2+ binding site [ion binding]; other site 657309007777 G-X-G motif; other site 657309007778 Response regulator receiver domain; Region: Response_reg; pfam00072 657309007779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309007780 active site 657309007781 phosphorylation site [posttranslational modification] 657309007782 intermolecular recognition site; other site 657309007783 dimerization interface [polypeptide binding]; other site 657309007784 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 657309007785 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 657309007786 G1 box; other site 657309007787 putative GEF interaction site [polypeptide binding]; other site 657309007788 GTP/Mg2+ binding site [chemical binding]; other site 657309007789 Switch I region; other site 657309007790 G2 box; other site 657309007791 G3 box; other site 657309007792 Switch II region; other site 657309007793 G4 box; other site 657309007794 G5 box; other site 657309007795 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 657309007796 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 657309007797 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 657309007798 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657309007799 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657309007800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309007801 Coenzyme A binding pocket [chemical binding]; other site 657309007802 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 657309007803 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657309007804 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657309007805 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657309007806 nucleotide binding region [chemical binding]; other site 657309007807 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657309007808 ATP-binding site [chemical binding]; other site 657309007809 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 657309007810 DNA topoisomerase III; Provisional; Region: PRK07726 657309007811 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 657309007812 active site 657309007813 putative interdomain interaction site [polypeptide binding]; other site 657309007814 putative metal-binding site [ion binding]; other site 657309007815 putative nucleotide binding site [chemical binding]; other site 657309007816 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 657309007817 domain I; other site 657309007818 DNA binding groove [nucleotide binding] 657309007819 phosphate binding site [ion binding]; other site 657309007820 domain II; other site 657309007821 domain III; other site 657309007822 nucleotide binding site [chemical binding]; other site 657309007823 catalytic site [active] 657309007824 domain IV; other site 657309007825 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657309007826 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 657309007827 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 657309007828 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309007829 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309007830 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309007831 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309007832 Virulence protein [General function prediction only]; Region: COG3943 657309007833 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309007834 Int/Topo IB signature motif; other site 657309007835 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007836 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007837 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007838 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309007839 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309007840 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309007841 Glycoside hydrolase family 99, an endo-alpha-1,2-mannosidase; Region: GH99; cd11574 657309007842 ligand binding site [chemical binding]; other site 657309007843 putative catalytic site [active] 657309007844 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309007845 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 657309007846 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 657309007847 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 657309007848 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657309007849 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 657309007850 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 657309007851 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 657309007852 putative active site [active] 657309007853 catalytic site [active] 657309007854 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 657309007855 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 657309007856 Pantoate-beta-alanine ligase; Region: PanC; cd00560 657309007857 pantoate--beta-alanine ligase; Region: panC; TIGR00018 657309007858 active site 657309007859 ATP-binding site [chemical binding]; other site 657309007860 pantoate-binding site; other site 657309007861 HXXH motif; other site 657309007862 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 657309007863 tetramerization interface [polypeptide binding]; other site 657309007864 active site 657309007865 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 657309007866 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 657309007867 FAD binding pocket [chemical binding]; other site 657309007868 FAD binding motif [chemical binding]; other site 657309007869 phosphate binding motif [ion binding]; other site 657309007870 beta-alpha-beta structure motif; other site 657309007871 NAD binding pocket [chemical binding]; other site 657309007872 Iron coordination center [ion binding]; other site 657309007873 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 657309007874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657309007875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309007876 seryl-tRNA synthetase; Provisional; Region: PRK05431 657309007877 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 657309007878 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 657309007879 dimer interface [polypeptide binding]; other site 657309007880 active site 657309007881 motif 1; other site 657309007882 motif 2; other site 657309007883 motif 3; other site 657309007884 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 657309007885 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 657309007886 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 657309007887 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657309007888 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 657309007889 motif II; other site 657309007890 TraB family; Region: TraB; pfam01963 657309007891 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 657309007892 NlpC/P60 family; Region: NLPC_P60; pfam00877 657309007893 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 657309007894 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657309007895 Walker A/P-loop; other site 657309007896 ATP binding site [chemical binding]; other site 657309007897 Q-loop/lid; other site 657309007898 ABC transporter signature motif; other site 657309007899 Walker B; other site 657309007900 D-loop; other site 657309007901 H-loop/switch region; other site 657309007902 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657309007903 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657309007904 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657309007905 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657309007906 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657309007907 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 657309007908 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 657309007909 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657309007910 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 657309007911 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 657309007912 MG2 domain; Region: A2M_N; pfam01835 657309007913 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309007915 Walker A/P-loop; other site 657309007916 ATP binding site [chemical binding]; other site 657309007917 ABC transporter; Region: ABC_tran; pfam00005 657309007918 Q-loop/lid; other site 657309007919 ABC transporter signature motif; other site 657309007920 Walker B; other site 657309007921 D-loop; other site 657309007922 H-loop/switch region; other site 657309007923 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 657309007924 RNA methyltransferase, RsmE family; Region: TIGR00046 657309007925 Bifunctional nuclease; Region: DNase-RNase; pfam02577 657309007926 UvrB/uvrC motif; Region: UVR; pfam02151 657309007927 nucleoside transporter; Region: 2A0110; TIGR00889 657309007928 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 657309007929 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 657309007930 putative RNA binding site [nucleotide binding]; other site 657309007931 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 657309007932 S-adenosylmethionine binding site [chemical binding]; other site 657309007933 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 657309007934 catalytic site [active] 657309007935 putative active site [active] 657309007936 putative substrate binding site [chemical binding]; other site 657309007937 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 657309007938 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 657309007939 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657309007940 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 657309007941 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 657309007942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657309007943 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309007944 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309007945 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309007946 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309007947 active site 657309007948 Fn3 associated; Region: Fn3_assoc; pfam13287 657309007949 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309007950 gag-polyprotein putative aspartyl protease; Region: gag-asp_proteas; pfam13975 657309007951 inhibitor binding site; inhibition site 657309007952 catalytic motif [active] 657309007953 Catalytic residue [active] 657309007954 Active site flap [active] 657309007955 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 657309007956 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309007957 catalytic residues [active] 657309007958 Aspartyl protease; Region: Asp_protease_2; pfam13650 657309007959 inhibitor binding site; inhibition site 657309007960 catalytic motif [active] 657309007961 Catalytic residue [active] 657309007962 Active site flap [active] 657309007963 Aspartyl protease; Region: Asp_protease_2; pfam13650 657309007964 Aspartyl protease; Region: Asp_protease_2; pfam13650 657309007965 inhibitor binding site; inhibition site 657309007966 catalytic motif [active] 657309007967 Catalytic residue [active] 657309007968 Active site flap [active] 657309007969 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 657309007970 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 657309007971 active site 657309007972 catalytic residues [active] 657309007973 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309007974 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309007975 catalytic residues [active] 657309007976 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309007977 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309007978 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309007979 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309007980 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309007981 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 657309007982 FecR protein; Region: FecR; pfam04773 657309007983 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 657309007984 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309007985 ligand binding site [chemical binding]; other site 657309007986 flexible hinge region; other site 657309007987 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 657309007988 putative switch regulator; other site 657309007989 non-specific DNA interactions [nucleotide binding]; other site 657309007990 DNA binding site [nucleotide binding] 657309007991 sequence specific DNA binding site [nucleotide binding]; other site 657309007992 putative cAMP binding site [chemical binding]; other site 657309007993 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 657309007994 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 657309007995 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657309007996 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657309007997 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 657309007998 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 657309007999 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 657309008000 putative active site [active] 657309008001 putative NTP binding site [chemical binding]; other site 657309008002 putative nucleic acid binding site [nucleotide binding]; other site 657309008003 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 657309008004 Part of AAA domain; Region: AAA_19; pfam13245 657309008005 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 657309008006 AAA domain; Region: AAA_12; pfam13087 657309008007 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 657309008008 putative active site [active] 657309008009 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 657309008010 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 657309008011 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 657309008012 RNA binding site [nucleotide binding]; other site 657309008013 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 657309008014 RNA binding site [nucleotide binding]; other site 657309008015 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 657309008016 RNA binding site [nucleotide binding]; other site 657309008017 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 657309008018 RNA binding site [nucleotide binding]; other site 657309008019 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 657309008020 RNA binding site [nucleotide binding]; other site 657309008021 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 657309008022 RNA binding site [nucleotide binding]; other site 657309008023 ribonuclease Z; Region: RNase_Z; TIGR02651 657309008024 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657309008025 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657309008026 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309008027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309008028 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 657309008029 DNA binding residues [nucleotide binding] 657309008030 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 657309008031 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 657309008032 homodimer interface [polypeptide binding]; other site 657309008033 metal binding site [ion binding]; metal-binding site 657309008034 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 657309008035 homodimer interface [polypeptide binding]; other site 657309008036 active site 657309008037 putative chemical substrate binding site [chemical binding]; other site 657309008038 metal binding site [ion binding]; metal-binding site 657309008039 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 657309008040 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657309008041 Walker A motif; other site 657309008042 ATP binding site [chemical binding]; other site 657309008043 Walker B motif; other site 657309008044 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 657309008045 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 657309008046 Double zinc ribbon; Region: DZR; pfam12773 657309008047 Protein of unknown function (DUF805); Region: DUF805; pfam05656 657309008048 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 657309008049 WYL domain; Region: WYL; pfam13280 657309008050 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 657309008051 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657309008052 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309008053 active site 657309008054 HIGH motif; other site 657309008055 nucleotide binding site [chemical binding]; other site 657309008056 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657309008057 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 657309008058 active site 657309008059 KMSKS motif; other site 657309008060 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 657309008061 tRNA binding surface [nucleotide binding]; other site 657309008062 anticodon binding site; other site 657309008063 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 657309008064 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309008065 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309008066 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 657309008067 DNA binding residues [nucleotide binding] 657309008068 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309008069 FecR protein; Region: FecR; pfam04773 657309008070 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309008071 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309008072 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008073 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309008074 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309008075 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309008076 SusD family; Region: SusD; pfam07980 657309008077 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 657309008078 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 657309008079 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309008080 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 657309008081 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 657309008082 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 657309008083 nucleotide binding region [chemical binding]; other site 657309008084 ATP-binding site [chemical binding]; other site 657309008085 SEC-C motif; Region: SEC-C; pfam02810 657309008086 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 657309008087 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 657309008088 pantothenate kinase; Reviewed; Region: PRK13320 657309008089 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 657309008090 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 657309008091 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 657309008092 Domain of unknown function DUF21; Region: DUF21; pfam01595 657309008093 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 657309008094 Transporter associated domain; Region: CorC_HlyC; smart01091 657309008095 SurA N-terminal domain; Region: SurA_N_2; pfam13623 657309008096 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 657309008097 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 657309008098 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 657309008099 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 657309008100 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309008101 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 657309008102 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 657309008103 FeS/SAM binding site; other site 657309008104 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 657309008105 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 657309008106 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 657309008107 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657309008108 Walker A motif; other site 657309008109 ATP binding site [chemical binding]; other site 657309008110 Walker B motif; other site 657309008111 arginine finger; other site 657309008112 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309008113 Lipopolysaccharide-assembly; Region: LptE; pfam04390 657309008114 Preprotein translocase SecG subunit; Region: SecG; pfam03840 657309008115 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 657309008116 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309008117 putative substrate translocation pore; other site 657309008118 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 657309008119 putative carbohydrate kinase; Provisional; Region: PRK10565 657309008120 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 657309008121 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 657309008122 putative substrate binding site [chemical binding]; other site 657309008123 putative ATP binding site [chemical binding]; other site 657309008124 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 657309008125 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 657309008126 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 657309008127 putative substrate translocation pore; other site 657309008128 POT family; Region: PTR2; cl17359 657309008129 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309008130 active site 657309008131 adenylate kinase; Reviewed; Region: adk; PRK00279 657309008132 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 657309008133 AMP-binding site [chemical binding]; other site 657309008134 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 657309008135 GTPase CgtA; Reviewed; Region: obgE; PRK12299 657309008136 GTP1/OBG; Region: GTP1_OBG; pfam01018 657309008137 Obg GTPase; Region: Obg; cd01898 657309008138 G1 box; other site 657309008139 GTP/Mg2+ binding site [chemical binding]; other site 657309008140 Switch I region; other site 657309008141 G2 box; other site 657309008142 G3 box; other site 657309008143 Switch II region; other site 657309008144 G4 box; other site 657309008145 G5 box; other site 657309008146 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 657309008147 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 657309008148 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 657309008149 B3/4 domain; Region: B3_4; pfam03483 657309008150 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657309008151 Peptidase family M23; Region: Peptidase_M23; pfam01551 657309008152 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 657309008153 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657309008154 Domain of unknown function (DUF4419); Region: DUF4419; pfam14388 657309008155 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 657309008156 active site 657309008157 DNA polymerase IV; Validated; Region: PRK02406 657309008158 DNA binding site [nucleotide binding] 657309008159 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309008160 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 657309008161 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657309008162 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 657309008163 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 657309008164 phosphodiesterase; Provisional; Region: PRK12704 657309008165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657309008166 Zn2+ binding site [ion binding]; other site 657309008167 Mg2+ binding site [ion binding]; other site 657309008168 Cell division protein ZapA; Region: ZapA; pfam05164 657309008169 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657309008170 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657309008171 DNA binding site [nucleotide binding] 657309008172 domain linker motif; other site 657309008173 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 657309008174 dimerization interface [polypeptide binding]; other site 657309008175 ligand binding site [chemical binding]; other site 657309008176 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 657309008177 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 657309008178 Na binding site [ion binding]; other site 657309008179 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309008180 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309008181 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008182 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309008183 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309008184 SusD family; Region: SusD; pfam07980 657309008185 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 657309008186 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 657309008187 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 657309008188 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 657309008189 catalytic core [active] 657309008190 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 657309008191 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 657309008192 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 657309008193 VCBS repeat; Region: VCBS_repeat; TIGR01965 657309008194 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 657309008195 active site 657309008196 catalytic triad [active] 657309008197 oxyanion hole [active] 657309008198 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657309008199 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 657309008200 NAD(P) binding site [chemical binding]; other site 657309008201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657309008202 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 657309008203 putative substrate binding site [chemical binding]; other site 657309008204 putative ATP binding site [chemical binding]; other site 657309008205 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 657309008206 Fic family protein [Function unknown]; Region: COG3177 657309008207 Fic/DOC family; Region: Fic; pfam02661 657309008208 nucleosidase; Provisional; Region: PRK05634 657309008209 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 657309008210 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 657309008211 active site 657309008212 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 657309008213 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 657309008214 FeS/SAM binding site; other site 657309008215 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 657309008216 Cysteine-rich domain; Region: CCG; pfam02754 657309008217 Cysteine-rich domain; Region: CCG; pfam02754 657309008218 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 657309008219 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657309008220 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657309008221 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 657309008222 dimer interface [polypeptide binding]; other site 657309008223 pyridoxal binding site [chemical binding]; other site 657309008224 ATP binding site [chemical binding]; other site 657309008225 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008226 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309008227 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309008228 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 657309008229 DNA binding residues [nucleotide binding] 657309008230 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657309008231 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657309008232 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 657309008233 putative acyl-acceptor binding pocket; other site 657309008234 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 657309008235 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 657309008236 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008237 von Willebrand factor; Region: vWF_A; pfam12450 657309008238 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 657309008239 VWA subgroup: 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_subgroup; cd01465 657309008240 metal ion-dependent adhesion site (MIDAS); other site 657309008241 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 657309008242 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 657309008243 ArsC family; Region: ArsC; pfam03960 657309008244 putative ArsC-like catalytic residues; other site 657309008245 putative TRX-like catalytic residues [active] 657309008246 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 657309008247 putative active site [active] 657309008248 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309008249 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008250 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309008251 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 657309008252 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309008253 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309008254 xanthine permease; Region: pbuX; TIGR03173 657309008255 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; cl15377 657309008256 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657309008257 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657309008258 Divergent AAA domain; Region: AAA_4; pfam04326 657309008259 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 657309008260 linker region; other site 657309008261 V-type ATP synthase subunit I; Validated; Region: PRK05771 657309008262 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309008263 replicative DNA helicase; Region: DnaB; TIGR00665 657309008264 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657309008265 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 657309008266 Walker A motif; other site 657309008267 ATP binding site [chemical binding]; other site 657309008268 Walker B motif; other site 657309008269 DNA binding loops [nucleotide binding] 657309008270 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309008271 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 657309008272 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 657309008273 FeS/SAM binding site; other site 657309008274 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 657309008275 MgtC family; Region: MgtC; pfam02308 657309008276 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 657309008277 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 657309008278 non-specific DNA binding site [nucleotide binding]; other site 657309008279 salt bridge; other site 657309008280 sequence-specific DNA binding site [nucleotide binding]; other site 657309008281 Ion transport protein; Region: Ion_trans; pfam00520 657309008282 Ion channel; Region: Ion_trans_2; pfam07885 657309008283 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657309008284 Double zinc ribbon; Region: DZR; pfam12773 657309008285 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 657309008286 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657309008287 catalytic residue [active] 657309008288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309008289 TIGR01777 family protein; Region: yfcH 657309008290 NAD(P) binding site [chemical binding]; other site 657309008291 active site 657309008292 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 657309008293 Predicted acetyltransferase [General function prediction only]; Region: COG2388 657309008294 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 657309008295 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 657309008296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309008297 NAD(P) binding site [chemical binding]; other site 657309008298 active site 657309008299 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657309008300 putative efflux protein, MATE family; Region: matE; TIGR00797 657309008301 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657309008302 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657309008303 active site 657309008304 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 657309008305 active site 657309008306 catalytic triad [active] 657309008307 oxyanion hole [active] 657309008308 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 657309008309 putative active site [active] 657309008310 putative catalytic site [active] 657309008311 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 657309008312 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 657309008313 MarC family integral membrane protein; Region: MarC; cl00919 657309008314 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_3; cd07241 657309008315 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657309008316 putative metal binding site [ion binding]; other site 657309008317 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657309008318 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657309008319 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657309008320 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309008321 Coenzyme A binding pocket [chemical binding]; other site 657309008322 beta-lactamase TEM; Provisional; Region: PRK15442 657309008323 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 657309008324 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 657309008325 SWIM zinc finger; Region: SWIM; pfam04434 657309008326 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657309008327 active site 657309008328 NTP binding site [chemical binding]; other site 657309008329 metal binding triad [ion binding]; metal-binding site 657309008330 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 657309008331 VirE N-terminal domain; Region: VirE_N; pfam08800 657309008332 Virulence-associated protein E; Region: VirE; pfam05272 657309008333 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309008334 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309008335 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 657309008336 non-specific DNA binding site [nucleotide binding]; other site 657309008337 salt bridge; other site 657309008338 sequence-specific DNA binding site [nucleotide binding]; other site 657309008339 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 657309008340 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 657309008341 ATP binding site [chemical binding]; other site 657309008342 putative Mg++ binding site [ion binding]; other site 657309008343 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657309008344 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657309008345 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657309008346 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657309008347 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657309008348 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657309008349 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657309008350 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 657309008351 active site 657309008352 DNA binding site [nucleotide binding] 657309008353 Int/Topo IB signature motif; other site 657309008354 AAA domain; Region: AAA_11; pfam13086 657309008355 Part of AAA domain; Region: AAA_19; pfam13245 657309008356 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 657309008357 AAA domain; Region: AAA_12; pfam13087 657309008358 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 657309008359 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657309008360 Low molecular weight phosphatase family; Region: LMWPc; cl00105 657309008361 active site 657309008362 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657309008363 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657309008364 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309008365 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 657309008366 active site 657309008367 metal binding site [ion binding]; metal-binding site 657309008368 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 657309008369 non-specific DNA binding site [nucleotide binding]; other site 657309008370 salt bridge; other site 657309008371 sequence-specific DNA binding site [nucleotide binding]; other site 657309008372 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 657309008373 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 657309008374 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 657309008375 ATP binding site [chemical binding]; other site 657309008376 putative Mg++ binding site [ion binding]; other site 657309008377 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 657309008378 Virulence protein [General function prediction only]; Region: COG3943 657309008379 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657309008380 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657309008381 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657309008382 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657309008383 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 657309008384 BRO family, N-terminal domain; Region: Bro-N; pfam02498 657309008385 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657309008386 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 657309008387 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657309008388 active site 657309008389 Int/Topo IB signature motif; other site 657309008390 DNA binding site [nucleotide binding] 657309008391 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309008392 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657309008393 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309008394 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309008395 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 657309008396 Virulence protein [General function prediction only]; Region: COG3943 657309008397 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309008398 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309008399 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 657309008400 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 657309008401 trmE is a tRNA modification GTPase; Region: trmE; cd04164 657309008402 G1 box; other site 657309008403 GTP/Mg2+ binding site [chemical binding]; other site 657309008404 Switch I region; other site 657309008405 G2 box; other site 657309008406 Switch II region; other site 657309008407 G3 box; other site 657309008408 G4 box; other site 657309008409 G5 box; other site 657309008410 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 657309008411 PAS fold; Region: PAS_3; pfam08447 657309008412 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309008413 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 657309008414 dimer interface [polypeptide binding]; other site 657309008415 phosphorylation site [posttranslational modification] 657309008416 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 657309008417 ATP binding site [chemical binding]; other site 657309008418 Mg2+ binding site [ion binding]; other site 657309008419 G-X-G motif; other site 657309008420 Response regulator receiver domain; Region: Response_reg; pfam00072 657309008421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309008422 active site 657309008423 phosphorylation site [posttranslational modification] 657309008424 intermolecular recognition site; other site 657309008425 dimerization interface [polypeptide binding]; other site 657309008426 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 657309008427 NADH(P)-binding; Region: NAD_binding_10; pfam13460 657309008428 NAD binding site [chemical binding]; other site 657309008429 substrate binding site [chemical binding]; other site 657309008430 putative active site [active] 657309008431 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 657309008432 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 657309008433 hypothetical protein; Provisional; Region: PRK13665 657309008434 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 657309008435 binding surface 657309008436 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309008437 TPR motif; other site 657309008438 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 657309008439 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 657309008440 Ligand Binding Site [chemical binding]; other site 657309008441 TIGR00269 family protein; Region: TIGR00269 657309008442 Protein of unknown function, DUF486; Region: DUF486; cl01236 657309008443 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 657309008444 ApbE family; Region: ApbE; pfam02424 657309008445 Predicted membrane protein [Function unknown]; Region: COG1971 657309008446 Domain of unknown function DUF; Region: DUF204; pfam02659 657309008447 Domain of unknown function DUF; Region: DUF204; pfam02659 657309008448 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657309008449 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657309008450 Ligand binding site; other site 657309008451 Putative Catalytic site; other site 657309008452 DXD motif; other site 657309008453 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 657309008454 enolase; Provisional; Region: eno; PRK00077 657309008455 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 657309008456 dimer interface [polypeptide binding]; other site 657309008457 metal binding site [ion binding]; metal-binding site 657309008458 substrate binding pocket [chemical binding]; other site 657309008459 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657309008460 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657309008461 CrcB-like protein; Region: CRCB; cl09114 657309008462 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 657309008463 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 657309008464 amidophosphoribosyltransferase; Region: purF; TIGR01134 657309008465 active site 657309008466 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309008467 active site 657309008468 peptidase T; Region: peptidase-T; TIGR01882 657309008469 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 657309008470 metal binding site [ion binding]; metal-binding site 657309008471 dimer interface [polypeptide binding]; other site 657309008472 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 657309008473 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 657309008474 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 657309008475 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657309008476 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657309008477 TrkA-C domain; Region: TrkA_C; pfam02080 657309008478 TrkA-C domain; Region: TrkA_C; pfam02080 657309008479 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 657309008480 nucleotide binding site/active site [active] 657309008481 HIT family signature motif; other site 657309008482 catalytic residue [active] 657309008483 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 657309008484 RNA binding surface [nucleotide binding]; other site 657309008485 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 657309008486 putative active site [active] 657309008487 catalytic residue [active] 657309008488 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 657309008489 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 657309008490 5S rRNA interface [nucleotide binding]; other site 657309008491 CTC domain interface [polypeptide binding]; other site 657309008492 L16 interface [polypeptide binding]; other site 657309008493 transcription antitermination factor NusB; Region: nusB; TIGR01951 657309008494 Preprotein translocase subunit; Region: YajC; pfam02699 657309008495 YbbR-like protein; Region: YbbR; pfam07949 657309008496 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 657309008497 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 657309008498 CoA-binding site [chemical binding]; other site 657309008499 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 657309008500 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 657309008501 Clp amino terminal domain; Region: Clp_N; pfam02861 657309008502 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 657309008503 Walker A motif; other site 657309008504 ATP binding site [chemical binding]; other site 657309008505 Walker B motif; other site 657309008506 arginine finger; other site 657309008507 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 657309008508 Walker A motif; other site 657309008509 ATP binding site [chemical binding]; other site 657309008510 Walker B motif; other site 657309008511 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657309008512 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 657309008513 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 657309008514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657309008515 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 657309008516 putative dimerization interface [polypeptide binding]; other site 657309008517 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309008518 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 657309008519 hypothetical protein; Provisional; Region: PRK11770 657309008520 Domain of unknown function (DUF307); Region: DUF307; pfam03733 657309008521 Domain of unknown function (DUF307); Region: DUF307; pfam03733 657309008522 Predicted membrane protein [Function unknown]; Region: COG2855 657309008523 recombinase A; Provisional; Region: recA; PRK09354 657309008524 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 657309008525 hexamer interface [polypeptide binding]; other site 657309008526 Walker A motif; other site 657309008527 ATP binding site [chemical binding]; other site 657309008528 Walker B motif; other site 657309008529 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 657309008530 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 657309008531 catalytic triad [active] 657309008532 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 657309008533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309008534 META domain; Region: META; pfam03724 657309008535 META domain; Region: META; pfam03724 657309008536 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657309008537 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 657309008538 nucleotide binding site [chemical binding]; other site 657309008539 NEF interaction site [polypeptide binding]; other site 657309008540 SBD interface [polypeptide binding]; other site 657309008541 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 657309008542 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309008543 Helix-turn-helix domain; Region: HTH_17; cl17695 657309008544 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309008545 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309008546 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657309008547 Int/Topo IB signature motif; other site 657309008548 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309008549 VirE N-terminal domain; Region: VirE_N; pfam08800 657309008550 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 657309008551 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309008552 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657309008553 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309008554 multiple promoter invertase; Provisional; Region: mpi; PRK13413 657309008555 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 657309008556 catalytic residues [active] 657309008557 catalytic nucleophile [active] 657309008558 Presynaptic Site I dimer interface [polypeptide binding]; other site 657309008559 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 657309008560 Synaptic Flat tetramer interface [polypeptide binding]; other site 657309008561 Synaptic Site I dimer interface [polypeptide binding]; other site 657309008562 DNA binding site [nucleotide binding] 657309008563 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657309008564 PLD-like domain; Region: PLDc_2; pfam13091 657309008565 putative active site [active] 657309008566 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657309008567 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 657309008568 ATP binding site [chemical binding]; other site 657309008569 putative Mg++ binding site [ion binding]; other site 657309008570 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 657309008571 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 657309008572 nucleotide binding region [chemical binding]; other site 657309008573 ATP-binding site [chemical binding]; other site 657309008574 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657309008575 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 657309008576 Divergent AAA domain; Region: AAA_4; pfam04326 657309008577 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657309008578 putative DNA binding site [nucleotide binding]; other site 657309008579 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 657309008580 putative Zn2+ binding site [ion binding]; other site 657309008581 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 657309008582 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 657309008583 ATP binding site [chemical binding]; other site 657309008584 putative Mg++ binding site [ion binding]; other site 657309008585 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 657309008586 nucleotide binding region [chemical binding]; other site 657309008587 ATP-binding site [chemical binding]; other site 657309008588 AAA domain; Region: AAA_30; pfam13604 657309008589 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 657309008590 Family description; Region: UvrD_C_2; pfam13538 657309008591 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657309008592 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657309008593 TrkA-C domain; Region: TrkA_C; pfam02080 657309008594 TrkA-C domain; Region: TrkA_C; pfam02080 657309008595 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 657309008596 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 657309008597 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 657309008598 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657309008599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309008600 Coenzyme A binding pocket [chemical binding]; other site 657309008601 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 657309008602 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008603 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309008604 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 657309008605 DNA binding residues [nucleotide binding] 657309008606 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309008607 FecR protein; Region: FecR; pfam04773 657309008608 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008609 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 657309008610 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 657309008611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309008612 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 657309008613 DNA binding residues [nucleotide binding] 657309008614 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657309008615 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 657309008616 Cl- selectivity filter; other site 657309008617 Cl- binding residues [ion binding]; other site 657309008618 pore gating glutamate residue; other site 657309008619 dimer interface [polypeptide binding]; other site 657309008620 H+/Cl- coupling transport residue; other site 657309008621 TrkA-C domain; Region: TrkA_C; pfam02080 657309008622 endonuclease IV; Provisional; Region: PRK01060 657309008623 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 657309008624 AP (apurinic/apyrimidinic) site pocket; other site 657309008625 DNA interaction; other site 657309008626 Metal-binding active site; metal-binding site 657309008627 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309008628 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 657309008629 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 657309008630 putative substrate translocation pore; other site 657309008631 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657309008632 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657309008633 nucleotide binding site [chemical binding]; other site 657309008634 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 657309008635 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309008636 Sulfatase; Region: Sulfatase; cl17466 657309008637 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309008638 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309008639 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309008640 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309008641 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309008642 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309008643 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008644 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309008645 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309008646 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309008647 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309008648 Two component regulator propeller; Region: Reg_prop; pfam07494 657309008649 Two component regulator propeller; Region: Reg_prop; pfam07494 657309008650 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309008651 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309008652 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 657309008653 dimer interface [polypeptide binding]; other site 657309008654 phosphorylation site [posttranslational modification] 657309008655 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 657309008656 ATP binding site [chemical binding]; other site 657309008657 Mg2+ binding site [ion binding]; other site 657309008658 G-X-G motif; other site 657309008659 Response regulator receiver domain; Region: Response_reg; pfam00072 657309008660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309008661 active site 657309008662 phosphorylation site [posttranslational modification] 657309008663 intermolecular recognition site; other site 657309008664 dimerization interface [polypeptide binding]; other site 657309008665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309008666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309008667 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 657309008668 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 657309008669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657309008670 catalytic residue [active] 657309008671 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657309008672 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657309008673 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657309008674 TrkA-N domain; Region: TrkA_N; pfam02254 657309008675 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309008676 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309008677 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309008678 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 657309008679 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 657309008680 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 657309008681 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 657309008682 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657309008683 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 657309008684 Ligand binding site; other site 657309008685 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657309008686 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 657309008687 motif II; other site 657309008688 serine/threonine protein kinase; Provisional; Region: PRK14879 657309008689 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 657309008690 substrate binding site [chemical binding]; other site 657309008691 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 657309008692 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 657309008693 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 657309008694 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 657309008695 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 657309008696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657309008697 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 657309008698 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 657309008699 GDP-Fucose binding site [chemical binding]; other site 657309008700 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 657309008701 putative ligand binding site [chemical binding]; other site 657309008702 putative catalytic site [active] 657309008703 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309008704 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 657309008705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309008706 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 657309008707 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 657309008708 putative ADP-binding pocket [chemical binding]; other site 657309008709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309008710 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657309008711 extended (e) SDRs; Region: SDR_e; cd08946 657309008712 NAD(P) binding site [chemical binding]; other site 657309008713 active site 657309008714 substrate binding site [chemical binding]; other site 657309008715 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309008716 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309008717 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 657309008718 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 657309008719 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 657309008720 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 657309008721 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 657309008722 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 657309008723 oligomer interface [polypeptide binding]; other site 657309008724 metal binding site [ion binding]; metal-binding site 657309008725 metal binding site [ion binding]; metal-binding site 657309008726 Cl binding site [ion binding]; other site 657309008727 aspartate ring; other site 657309008728 basic sphincter; other site 657309008729 putative hydrophobic gate; other site 657309008730 periplasmic entrance; other site 657309008731 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 657309008732 MutS domain III; Region: MutS_III; pfam05192 657309008733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309008734 Walker A/P-loop; other site 657309008735 ATP binding site [chemical binding]; other site 657309008736 Q-loop/lid; other site 657309008737 ABC transporter signature motif; other site 657309008738 Walker B; other site 657309008739 D-loop; other site 657309008740 H-loop/switch region; other site 657309008741 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657309008742 Smr domain; Region: Smr; pfam01713 657309008743 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309008744 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657309008745 Int/Topo IB signature motif; other site 657309008746 ORF6N domain; Region: ORF6N; pfam10543 657309008747 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657309008748 MPN+ (JAMM) motif; other site 657309008749 Zinc-binding site [ion binding]; other site 657309008750 Antirestriction protein (ArdA); Region: ArdA; pfam07275 657309008751 Conjugative transposon protein TraO; Region: TraO; pfam10626 657309008752 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 657309008753 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 657309008754 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 657309008755 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 657309008756 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 657309008757 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 657309008758 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 657309008759 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 657309008760 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 657309008761 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 657309008762 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 657309008763 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 657309008764 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 657309008765 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309008766 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 657309008767 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 657309008768 P-loop; other site 657309008769 Magnesium ion binding site [ion binding]; other site 657309008770 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 657309008771 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309008772 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 657309008773 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 657309008774 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657309008775 active site 657309008776 DNA binding site [nucleotide binding] 657309008777 Int/Topo IB signature motif; other site 657309008778 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309008779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309008780 Walker A/P-loop; other site 657309008781 ATP binding site [chemical binding]; other site 657309008782 Q-loop/lid; other site 657309008783 ABC transporter signature motif; other site 657309008784 Walker B; other site 657309008785 D-loop; other site 657309008786 H-loop/switch region; other site 657309008787 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 657309008788 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309008789 ligand binding site [chemical binding]; other site 657309008790 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 657309008791 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 657309008792 alpha-galactosidase; Region: PLN02808; cl17638 657309008793 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 657309008794 active site 657309008795 catalytic site [active] 657309008796 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 657309008797 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 657309008798 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657309008799 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 657309008800 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 657309008801 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 657309008802 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 657309008803 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 657309008804 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 657309008805 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309008806 putative ADP-binding pocket [chemical binding]; other site 657309008807 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657309008808 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 657309008809 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 657309008810 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 657309008811 putative glycosyl transferase; Provisional; Region: PRK10073 657309008812 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 657309008813 active site 657309008814 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309008815 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 657309008816 active site 657309008817 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657309008818 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309008819 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 657309008820 putative ADP-binding pocket [chemical binding]; other site 657309008821 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309008822 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 657309008823 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 657309008824 active site 657309008825 Core-2/I-Branching enzyme; Region: Branch; pfam02485 657309008826 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657309008827 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309008828 4Fe-4S binding domain; Region: Fer4; pfam00037 657309008829 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657309008830 ADP-specific Phosphofructokinase/Glucokinase conserved region; Region: ADP_PFK_GK; cl14060 657309008831 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 657309008832 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 657309008833 active site 657309008834 DNA binding site [nucleotide binding] 657309008835 Int/Topo IB signature motif; other site 657309008836 Polymerase and Histidinol Phosphatase domain of Chlorobi like; Region: PHP_HisPPase_Chlorobi_like; cd12112 657309008837 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 657309008838 active site 657309008839 dimer interface [polypeptide binding]; other site 657309008840 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309008841 SusD family; Region: SusD; pfam07980 657309008842 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309008843 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008844 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309008845 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 657309008846 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 657309008847 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 657309008848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 657309008849 RteC protein; Region: RteC; pfam09357 657309008850 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309008851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309008852 active site 657309008853 phosphorylation site [posttranslational modification] 657309008854 intermolecular recognition site; other site 657309008855 dimerization interface [polypeptide binding]; other site 657309008856 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 657309008857 Walker A motif; other site 657309008858 ATP binding site [chemical binding]; other site 657309008859 Walker B motif; other site 657309008860 arginine finger; other site 657309008861 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 657309008862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309008863 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 657309008864 dimer interface [polypeptide binding]; other site 657309008865 phosphorylation site [posttranslational modification] 657309008866 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 657309008867 ATP binding site [chemical binding]; other site 657309008868 Mg2+ binding site [ion binding]; other site 657309008869 G-X-G motif; other site 657309008870 Response regulator receiver domain; Region: Response_reg; pfam00072 657309008871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309008872 active site 657309008873 phosphorylation site [posttranslational modification] 657309008874 intermolecular recognition site; other site 657309008875 dimerization interface [polypeptide binding]; other site 657309008876 PBP superfamily domain; Region: PBP_like_2; cl17296 657309008877 30S ribosomal protein S17; Region: S17_bact; TIGR03635 657309008878 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 657309008879 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 657309008880 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309008881 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 657309008882 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 657309008883 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309008884 FecR protein; Region: FecR; pfam04773 657309008885 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309008886 Clostripain family; Region: Peptidase_C11; pfam03415 657309008887 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 657309008888 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309008889 active site 657309008890 catalytic site [active] 657309008891 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657309008892 ParB-like nuclease domain; Region: ParBc; pfam02195 657309008893 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 657309008894 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 657309008895 Conjugative transposon protein TraO; Region: TraO; pfam10626 657309008896 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 657309008897 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 657309008898 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 657309008899 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 657309008900 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 657309008901 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 657309008902 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 657309008903 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 657309008904 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 657309008905 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 657309008906 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 657309008907 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309008908 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657309008909 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 657309008910 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657309008911 YWFCY protein; Region: YWFCY; pfam14293 657309008912 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 657309008913 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657309008914 Walker A motif; other site 657309008915 ATP binding site [chemical binding]; other site 657309008916 Walker B motif; other site 657309008917 arginine finger; other site 657309008918 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 657309008919 active site 657309008920 catalytic triad [active] 657309008921 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 657309008922 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 657309008923 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 657309008924 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 657309008925 active site 657309008926 DNA binding site [nucleotide binding] 657309008927 Int/Topo IB signature motif; other site 657309008928 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 657309008929 active site 657309008930 DNA binding site [nucleotide binding] 657309008931 Int/Topo IB signature motif; other site 657309008932 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657309008933 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 657309008934 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 657309008935 active site 657309008936 DNA binding site [nucleotide binding] 657309008937 Int/Topo IB signature motif; other site 657309008938 TIR domain; Region: TIR_2; pfam13676 657309008939 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 657309008940 TIR domain; Region: TIR_2; pfam13676 657309008941 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657309008942 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 657309008943 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309008944 Int/Topo IB signature motif; other site 657309008945 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 657309008946 Family description; Region: DsbD_2; pfam13386 657309008947 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 657309008948 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 657309008949 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 657309008950 P loop; other site 657309008951 Nucleotide binding site [chemical binding]; other site 657309008952 DTAP/Switch II; other site 657309008953 Switch I; other site 657309008954 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 657309008955 P loop; other site 657309008956 Nucleotide binding site [chemical binding]; other site 657309008957 DTAP/Switch II; other site 657309008958 Switch I; other site 657309008959 Low molecular weight phosphatase family; Region: LMWPc; cl00105 657309008960 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657309008961 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 657309008962 arsenical-resistance protein; Region: acr3; TIGR00832 657309008963 Predicted permeases [General function prediction only]; Region: COG0701 657309008964 RteC protein; Region: RteC; pfam09357 657309008965 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 657309008966 RibD C-terminal domain; Region: RibD_C; cl17279 657309008967 Helix-turn-helix domain; Region: HTH_17; pfam12728 657309008968 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 657309008969 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657309008970 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 657309008971 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 657309008972 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 657309008973 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309008974 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 657309008975 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 657309008976 S-adenosylmethionine binding site [chemical binding]; other site 657309008977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309008978 Coenzyme A binding pocket [chemical binding]; other site 657309008979 YoaP-like; Region: YoaP; pfam14268 657309008980 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309008981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309008982 Uncharacterized conserved protein [Function unknown]; Region: COG3189 657309008983 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 657309008984 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657309008985 active site 657309008986 motif I; other site 657309008987 motif II; other site 657309008988 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 657309008989 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 657309008990 CoenzymeA binding site [chemical binding]; other site 657309008991 subunit interaction site [polypeptide binding]; other site 657309008992 PHB binding site; other site 657309008993 chorismate binding enzyme; Region: Chorismate_bind; cl10555 657309008994 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 657309008995 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 657309008996 dimer interface [polypeptide binding]; other site 657309008997 tetramer interface [polypeptide binding]; other site 657309008998 PYR/PP interface [polypeptide binding]; other site 657309008999 TPP binding site [chemical binding]; other site 657309009000 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 657309009001 TPP-binding site [chemical binding]; other site 657309009002 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 657309009003 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 657309009004 substrate binding site [chemical binding]; other site 657309009005 oxyanion hole (OAH) forming residues; other site 657309009006 trimer interface [polypeptide binding]; other site 657309009007 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 657309009008 O-succinylbenzoate synthase; Provisional; Region: PRK02714 657309009009 active site 657309009010 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657309009011 acyl-activating enzyme (AAE) consensus motif; other site 657309009012 AMP binding site [chemical binding]; other site 657309009013 active site 657309009014 CoA binding site [chemical binding]; other site 657309009015 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309009016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009017 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 657309009018 DNA binding residues [nucleotide binding] 657309009019 FecR protein; Region: FecR; pfam04773 657309009020 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309009021 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009022 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009023 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 657309009024 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309009025 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009026 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 657309009027 active site 657309009028 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309009029 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309009030 Ferritin-like domain; Region: Ferritin; pfam00210 657309009031 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 657309009032 dimerization interface [polypeptide binding]; other site 657309009033 DPS ferroxidase diiron center [ion binding]; other site 657309009034 ion pore; other site 657309009035 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657309009036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657309009037 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 657309009038 dimerization interface [polypeptide binding]; other site 657309009039 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 657309009040 amphipathic channel; other site 657309009041 Asn-Pro-Ala signature motifs; other site 657309009042 NigD-like protein; Region: NigD; pfam12667 657309009043 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309009044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009045 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 657309009046 DNA binding residues [nucleotide binding] 657309009047 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 657309009048 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309009049 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009050 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 657309009051 DNA binding residues [nucleotide binding] 657309009052 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309009053 FecR protein; Region: FecR; pfam04773 657309009054 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309009055 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309009056 Secretin and TonB N terminus short domain; Region: STN; smart00965 657309009057 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009058 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009059 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309009060 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 657309009061 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009062 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009063 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309009064 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 657309009065 Trp docking motif [polypeptide binding]; other site 657309009066 active site 657309009067 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309009068 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309009069 putative active site [active] 657309009070 catalytic site [active] 657309009071 putative metal binding site [ion binding]; other site 657309009072 oligomer interface [polypeptide binding]; other site 657309009073 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309009074 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309009075 putative active site [active] 657309009076 catalytic site [active] 657309009077 putative metal binding site [ion binding]; other site 657309009078 oligomer interface [polypeptide binding]; other site 657309009079 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309009080 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309009081 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309009082 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009083 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 657309009084 DNA binding residues [nucleotide binding] 657309009085 FecR protein; Region: FecR; pfam04773 657309009086 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309009087 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309009088 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009089 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 657309009090 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009091 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309009092 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 657309009093 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009094 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009095 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309009096 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309009097 putative active site [active] 657309009098 catalytic site [active] 657309009099 putative metal binding site [ion binding]; other site 657309009100 oligomer interface [polypeptide binding]; other site 657309009101 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309009102 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309009103 putative active site [active] 657309009104 catalytic site [active] 657309009105 putative metal binding site [ion binding]; other site 657309009106 oligomer interface [polypeptide binding]; other site 657309009107 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 657309009108 non-specific DNA binding site [nucleotide binding]; other site 657309009109 salt bridge; other site 657309009110 sequence-specific DNA binding site [nucleotide binding]; other site 657309009111 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 657309009112 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 657309009113 salt bridge; other site 657309009114 non-specific DNA binding site [nucleotide binding]; other site 657309009115 sequence-specific DNA binding site [nucleotide binding]; other site 657309009116 VirE N-terminal domain; Region: VirE_N; pfam08800 657309009117 Virulence-associated protein E; Region: VirE; pfam05272 657309009118 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309009119 Winged helix-turn helix; Region: HTH_29; pfam13551 657309009120 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309009121 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309009122 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 657309009123 amidase catalytic site [active] 657309009124 Zn binding residues [ion binding]; other site 657309009125 substrate binding site [chemical binding]; other site 657309009126 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 657309009127 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 657309009128 FeS/SAM binding site; other site 657309009129 Pyruvate formate lyase 1; Region: PFL1; cd01678 657309009130 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 657309009131 coenzyme A binding site [chemical binding]; other site 657309009132 active site 657309009133 catalytic residues [active] 657309009134 glycine loop; other site 657309009135 hypothetical protein; Validated; Region: PRK09039 657309009136 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 657309009137 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 657309009138 active site 657309009139 DNA binding site [nucleotide binding] 657309009140 Int/Topo IB signature motif; other site 657309009141 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 657309009142 active site 657309009143 DNA binding site [nucleotide binding] 657309009144 Int/Topo IB signature motif; other site 657309009145 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309009146 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657309009147 Methyltransferase domain; Region: Methyltransf_18; pfam12847 657309009148 Family description; Region: UvrD_C_2; pfam13538 657309009149 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 657309009150 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 657309009151 Divergent AAA domain; Region: AAA_4; pfam04326 657309009152 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657309009153 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657309009154 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 657309009155 non-specific DNA binding site [nucleotide binding]; other site 657309009156 salt bridge; other site 657309009157 sequence-specific DNA binding site [nucleotide binding]; other site 657309009158 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 657309009159 CHC2 zinc finger; Region: zf-CHC2; cl17510 657309009160 Toprim-like; Region: Toprim_2; pfam13155 657309009161 AAA domain; Region: AAA_25; pfam13481 657309009162 Protein of unknown function (DUF3853); Region: DUF3853; pfam12964 657309009163 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657309009164 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657309009165 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657309009166 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 657309009167 active site 657309009168 DNA binding site [nucleotide binding] 657309009169 Int/Topo IB signature motif; other site 657309009170 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 657309009171 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657309009172 Int/Topo IB signature motif; other site 657309009173 ORF6N domain; Region: ORF6N; pfam10543 657309009174 Antirestriction protein (ArdA); Region: ArdA; pfam07275 657309009175 Domain of unknown function, B. Theta Gene description (DUF3873); Region: DUF3873; pfam12989 657309009176 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 657309009177 Conjugative transposon protein TraO; Region: TraO; pfam10626 657309009178 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 657309009179 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 657309009180 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 657309009181 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 657309009182 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 657309009183 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 657309009184 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 657309009185 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 657309009186 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 657309009187 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 657309009188 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 657309009189 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 657309009190 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 657309009191 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 657309009192 P-loop; other site 657309009193 Magnesium ion binding site [ion binding]; other site 657309009194 FcoT-like thioesterase domain; Region: FcoT; pfam10862 657309009195 DNA methylase; Region: N6_N4_Mtase; pfam01555 657309009196 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 657309009197 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 657309009198 non-specific DNA binding site [nucleotide binding]; other site 657309009199 salt bridge; other site 657309009200 sequence-specific DNA binding site [nucleotide binding]; other site 657309009201 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657309009202 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 657309009203 FeS/SAM binding site; other site 657309009204 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 657309009205 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 657309009206 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 657309009207 putative dimer interface [polypeptide binding]; other site 657309009208 putative anticodon binding site; other site 657309009209 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 657309009210 homodimer interface [polypeptide binding]; other site 657309009211 motif 1; other site 657309009212 motif 2; other site 657309009213 active site 657309009214 motif 3; other site 657309009215 RteC protein; Region: RteC; pfam09357 657309009216 Predicted transcriptional regulators [Transcription]; Region: COG1733 657309009217 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 657309009218 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657309009219 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 657309009220 FeS/SAM binding site; other site 657309009221 Nitroreductase-like family 3. 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_3; cd02139 657309009222 putative FMN binding site [chemical binding]; other site 657309009223 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657309009224 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 657309009225 metal-binding site [ion binding] 657309009226 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657309009227 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657309009228 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309009229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309009230 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 657309009231 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 657309009232 putative dimer interface [polypeptide binding]; other site 657309009233 [2Fe-2S] cluster binding site [ion binding]; other site 657309009234 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 657309009235 catalytic loop [active] 657309009236 iron binding site [ion binding]; other site 657309009237 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 657309009238 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 657309009239 4Fe-4S binding domain; Region: Fer4; pfam00037 657309009240 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657309009241 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 657309009242 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 657309009243 dimer interface [polypeptide binding]; other site 657309009244 [2Fe-2S] cluster binding site [ion binding]; other site 657309009245 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 657309009246 SLBB domain; Region: SLBB; pfam10531 657309009247 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 657309009248 4Fe-4S binding domain; Region: Fer4; pfam00037 657309009249 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 657309009250 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 657309009251 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309009252 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009253 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 657309009254 Glycosyl hydrolase family 49; Region: Glyco_hydro_49; pfam03718 657309009255 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 657309009256 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 657309009257 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 657309009258 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 657309009259 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 657309009260 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009261 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009262 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309009263 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309009264 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009265 SusD family; Region: SusD; pfam07980 657309009266 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657309009267 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657309009268 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657309009269 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657309009270 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 657309009271 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 657309009272 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657309009273 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 657309009274 active site 657309009275 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309009276 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 657309009277 Domain of unknown function DUF21; Region: DUF21; pfam01595 657309009278 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 657309009279 Transporter associated domain; Region: CorC_HlyC; smart01091 657309009280 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 657309009281 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009282 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309009283 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 657309009284 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 657309009285 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 657309009286 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657309009287 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 657309009288 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 657309009289 Catalytic dyad [active] 657309009290 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 657309009291 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 657309009292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657309009293 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 657309009294 DNA binding residues [nucleotide binding] 657309009295 dimerization interface [polypeptide binding]; other site 657309009296 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 657309009297 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 657309009298 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 657309009299 putative substrate translocation pore; other site 657309009300 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 657309009301 Transglycosylase; Region: Transgly; pfam00912 657309009302 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657309009303 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 657309009304 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 657309009305 MG2 domain; Region: A2M_N; pfam01835 657309009306 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 657309009307 surface patch; other site 657309009308 thioester region; other site 657309009309 specificity defining residues; other site 657309009310 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657309009311 Protein of unknown function DUF86; Region: DUF86; cl01031 657309009312 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657309009313 active site 657309009314 NTP binding site [chemical binding]; other site 657309009315 metal binding triad [ion binding]; metal-binding site 657309009316 antibiotic binding site [chemical binding]; other site 657309009317 GGGtGRT protein; Region: GGGtGRT; pfam14057 657309009318 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657309009319 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 657309009320 TIGR03987 family protein; Region: TIGR03987 657309009321 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 657309009322 NigD-like protein; Region: NigD; pfam12667 657309009323 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 657309009324 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 657309009325 SmpB-tmRNA interface; other site 657309009326 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 657309009327 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 657309009328 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 657309009329 substrate binding pocket [chemical binding]; other site 657309009330 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 657309009331 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 657309009332 B12 binding site [chemical binding]; other site 657309009333 cobalt ligand [ion binding]; other site 657309009334 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 657309009335 putative FMN binding site [chemical binding]; other site 657309009336 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 657309009337 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 657309009338 Na binding site [ion binding]; other site 657309009339 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 657309009340 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 657309009341 substrate binding pocket [chemical binding]; other site 657309009342 membrane-bound complex binding site; other site 657309009343 hinge residues; other site 657309009344 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 657309009345 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657309009346 catalytic residue [active] 657309009347 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 657309009348 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 657309009349 ATP-binding site [chemical binding]; other site 657309009350 Sugar specificity; other site 657309009351 Pyrimidine base specificity; other site 657309009352 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 657309009353 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 657309009354 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 657309009355 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 657309009356 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309009357 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009358 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 657309009359 DNA binding residues [nucleotide binding] 657309009360 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309009361 FecR protein; Region: FecR; pfam04773 657309009362 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309009363 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009364 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009365 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309009366 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 657309009367 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009368 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009369 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657309009370 Interdomain contacts; other site 657309009371 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657309009372 Interdomain contacts; other site 657309009373 Cytokine receptor motif; other site 657309009374 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 657309009375 FOG: WD40-like repeat [Function unknown]; Region: COG1520 657309009376 Trp docking motif [polypeptide binding]; other site 657309009377 active site 657309009378 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 657309009379 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 657309009380 DNA interaction; other site 657309009381 Metal-binding active site; metal-binding site 657309009382 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657309009383 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 657309009384 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 657309009385 putative active site [active] 657309009386 catalytic site [active] 657309009387 putative metal binding site [ion binding]; other site 657309009388 oligomer interface [polypeptide binding]; other site 657309009389 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 657309009390 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 657309009391 putative substrate translocation pore; other site 657309009392 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 657309009393 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 657309009394 CoenzymeA binding site [chemical binding]; other site 657309009395 subunit interaction site [polypeptide binding]; other site 657309009396 PHB binding site; other site 657309009397 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 657309009398 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 657309009399 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 657309009400 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 657309009401 histidinol dehydrogenase; Region: hisD; TIGR00069 657309009402 NAD binding site [chemical binding]; other site 657309009403 dimerization interface [polypeptide binding]; other site 657309009404 product binding site; other site 657309009405 substrate binding site [chemical binding]; other site 657309009406 zinc binding site [ion binding]; other site 657309009407 catalytic residues [active] 657309009408 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 657309009409 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 657309009410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309009411 homodimer interface [polypeptide binding]; other site 657309009412 catalytic residue [active] 657309009413 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 657309009414 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 657309009415 active site 657309009416 motif I; other site 657309009417 motif II; other site 657309009418 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 657309009419 putative active site pocket [active] 657309009420 4-fold oligomerization interface [polypeptide binding]; other site 657309009421 metal binding residues [ion binding]; metal-binding site 657309009422 3-fold/trimer interface [polypeptide binding]; other site 657309009423 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 657309009424 Protein tyrosine phosphatase, catalytic domain motif; Region: PTPc_motif; smart00404 657309009425 active site 657309009426 NAD synthetase; Reviewed; Region: nadE; PRK02628 657309009427 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 657309009428 multimer interface [polypeptide binding]; other site 657309009429 active site 657309009430 catalytic triad [active] 657309009431 protein interface 1 [polypeptide binding]; other site 657309009432 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 657309009433 homodimer interface [polypeptide binding]; other site 657309009434 NAD binding pocket [chemical binding]; other site 657309009435 ATP binding pocket [chemical binding]; other site 657309009436 Mg binding site [ion binding]; other site 657309009437 active-site loop [active] 657309009438 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009439 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009440 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 657309009441 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009442 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009443 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 657309009444 Leucine rich repeat; Region: LRR_8; pfam13855 657309009445 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309009446 Leucine rich repeat; Region: LRR_8; pfam13855 657309009447 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 657309009448 active site 657309009449 catalytic residues [active] 657309009450 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 657309009451 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 657309009452 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657309009453 metal binding site 2 [ion binding]; metal-binding site 657309009454 putative DNA binding helix; other site 657309009455 metal binding site 1 [ion binding]; metal-binding site 657309009456 dimer interface [polypeptide binding]; other site 657309009457 structural Zn2+ binding site [ion binding]; other site 657309009458 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657309009459 Rubrerythrin [Energy production and conversion]; Region: COG1592 657309009460 iron binding site [ion binding]; other site 657309009461 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 657309009462 Rubrerythrin [Energy production and conversion]; Region: COG1592 657309009463 diiron binding motif [ion binding]; other site 657309009464 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 657309009465 putative FMN binding site [chemical binding]; other site 657309009466 NADPH bind site [chemical binding]; other site 657309009467 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 657309009468 catalytic residues [active] 657309009469 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 657309009470 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309009471 catalytic residues [active] 657309009472 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 657309009473 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 657309009474 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 657309009475 Peptidase S46; Region: Peptidase_S46; pfam10459 657309009476 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657309009477 Peptidase S46; Region: Peptidase_S46; pfam10459 657309009478 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657309009479 anaerobic sulfatase-maturase; Provisional; Region: PRK13745 657309009480 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 657309009481 FeS/SAM binding site; other site 657309009482 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657309009483 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 657309009484 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309009485 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309009486 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309009487 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 657309009488 binding surface 657309009489 TPR motif; other site 657309009490 TPR repeat; Region: TPR_11; pfam13414 657309009491 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 657309009492 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657309009493 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657309009494 putative acyl-acceptor binding pocket; other site 657309009495 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 657309009496 active site 657309009497 metal binding site [ion binding]; metal-binding site 657309009498 DNA binding site [nucleotide binding] 657309009499 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 657309009500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309009501 Walker A/P-loop; other site 657309009502 ATP binding site [chemical binding]; other site 657309009503 Q-loop/lid; other site 657309009504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309009505 ABC transporter signature motif; other site 657309009506 Walker B; other site 657309009507 D-loop; other site 657309009508 H-loop/switch region; other site 657309009509 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309009510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009511 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 657309009512 DNA binding residues [nucleotide binding] 657309009513 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 657309009514 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 657309009515 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 657309009516 Ligand binding site; other site 657309009517 Putative Catalytic site; other site 657309009518 DXD motif; other site 657309009519 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 657309009520 hypothetical protein; Provisional; Region: PRK00955 657309009521 SirA-like protein; Region: SirA; pfam01206 657309009522 CPxP motif; other site 657309009523 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 657309009524 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; cl02713 657309009525 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657309009526 Interdomain contacts; other site 657309009527 Cytokine receptor motif; other site 657309009528 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 657309009529 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 657309009530 active site 657309009531 trimer interface [polypeptide binding]; other site 657309009532 allosteric site; other site 657309009533 active site lid [active] 657309009534 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657309009535 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 657309009536 C-N hydrolase family amidase; Provisional; Region: PRK10438 657309009537 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 657309009538 putative active site [active] 657309009539 catalytic triad [active] 657309009540 dimer interface [polypeptide binding]; other site 657309009541 multimer interface [polypeptide binding]; other site 657309009542 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 657309009543 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657309009544 putative acyl-acceptor binding pocket; other site 657309009545 AAA domain; Region: AAA_14; pfam13173 657309009546 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309009547 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 657309009548 dimerization interface [polypeptide binding]; other site 657309009549 putative active cleft [active] 657309009550 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009551 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009552 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309009553 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309009554 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 657309009555 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 657309009556 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657309009557 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657309009558 active site 657309009559 metal binding site [ion binding]; metal-binding site 657309009560 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309009561 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 657309009562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 657309009563 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 657309009564 active site 657309009565 catalytic triad [active] 657309009566 oxyanion hole [active] 657309009567 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309009568 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309009569 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309009570 active site 657309009571 Fn3 associated; Region: Fn3_assoc; pfam13287 657309009572 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 657309009573 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 657309009574 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309009575 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009576 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009577 SusD family; Region: SusD; pfam07980 657309009578 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009579 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009580 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309009581 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 657309009582 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 657309009583 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 657309009584 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 657309009585 Clostripain family; Region: Peptidase_C11; pfam03415 657309009586 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 657309009587 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657309009588 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 657309009589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309009590 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657309009591 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 657309009592 DNA binding residues [nucleotide binding] 657309009593 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 657309009594 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657309009595 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 657309009596 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 657309009597 protein binding site [polypeptide binding]; other site 657309009598 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 657309009599 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 657309009600 active site 657309009601 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657309009602 NlpC/P60 family; Region: NLPC_P60; pfam00877 657309009603 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 657309009604 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 657309009605 FMN binding site [chemical binding]; other site 657309009606 dimer interface [polypeptide binding]; other site 657309009607 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 657309009608 Lumazine binding domain; Region: Lum_binding; pfam00677 657309009609 Lumazine binding domain; Region: Lum_binding; pfam00677 657309009610 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 657309009611 PhoU domain; Region: PhoU; pfam01895 657309009612 PhoU domain; Region: PhoU; pfam01895 657309009613 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14245 657309009614 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 657309009615 Walker A/P-loop; other site 657309009616 ATP binding site [chemical binding]; other site 657309009617 Q-loop/lid; other site 657309009618 ABC transporter signature motif; other site 657309009619 Walker B; other site 657309009620 D-loop; other site 657309009621 H-loop/switch region; other site 657309009622 PBP superfamily domain; Region: PBP_like_2; pfam12849 657309009623 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 657309009624 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 657309009625 dimer interface [polypeptide binding]; other site 657309009626 conserved gate region; other site 657309009627 putative PBP binding loops; other site 657309009628 ABC-ATPase subunit interface; other site 657309009629 PBP superfamily domain; Region: PBP_like_2; cl17296 657309009630 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 657309009631 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309009632 active site 657309009633 HIGH motif; other site 657309009634 nucleotide binding site [chemical binding]; other site 657309009635 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657309009636 active site 657309009637 KMSKS motif; other site 657309009638 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 657309009639 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 657309009640 binding surface 657309009641 TPR motif; other site 657309009642 TPR repeat; Region: TPR_11; pfam13414 657309009643 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 657309009644 binding surface 657309009645 TPR motif; other site 657309009646 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 657309009647 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309009648 binding surface 657309009649 TPR motif; other site 657309009650 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 657309009651 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 657309009652 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 657309009653 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 657309009654 dimer interface [polypeptide binding]; other site 657309009655 catalytic triad [active] 657309009656 peroxidatic and resolving cysteines [active] 657309009657 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 657309009658 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 657309009659 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657309009660 catalytic residue [active] 657309009661 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 657309009662 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 657309009663 putative active site [active] 657309009664 putative FMN binding site [chemical binding]; other site 657309009665 putative substrate binding site [chemical binding]; other site 657309009666 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 657309009667 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 657309009668 putative active site [active] 657309009669 PhoH-like protein; Region: PhoH; pfam02562 657309009670 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657309009671 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 657309009672 homotrimer interaction site [polypeptide binding]; other site 657309009673 putative active site [active] 657309009674 RyR domain; Region: RyR; pfam02026 657309009675 Protein of unknown function (DUF805); Region: DUF805; pfam05656 657309009676 VirE N-terminal domain; Region: VirE_N; pfam08800 657309009677 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 657309009678 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 657309009679 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309009680 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 657309009681 amidase catalytic site [active] 657309009682 Zn binding residues [ion binding]; other site 657309009683 substrate binding site [chemical binding]; other site 657309009684 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309009685 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 657309009686 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 657309009687 active site 657309009688 homodimer interface [polypeptide binding]; other site 657309009689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309009690 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 657309009691 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 657309009692 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 657309009693 GDP-Fucose binding site [chemical binding]; other site 657309009694 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309009695 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657309009696 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657309009697 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 657309009698 active site 657309009699 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 657309009700 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657309009701 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657309009702 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 657309009703 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 657309009704 dimer interface [polypeptide binding]; other site 657309009705 tetramer interface [polypeptide binding]; other site 657309009706 PYR/PP interface [polypeptide binding]; other site 657309009707 TPP binding site [chemical binding]; other site 657309009708 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 657309009709 TPP-binding site [chemical binding]; other site 657309009710 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309009711 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657309009712 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 657309009713 classical (c) SDRs; Region: SDR_c; cd05233 657309009714 NAD(P) binding site [chemical binding]; other site 657309009715 active site 657309009716 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 657309009717 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 657309009718 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 657309009719 active site 657309009720 catalytic residues [active] 657309009721 DNA binding site [nucleotide binding] 657309009722 Int/Topo IB signature motif; other site 657309009723 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657309009724 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 657309009725 binding surface 657309009726 TPR motif; other site 657309009727 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 657309009728 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 657309009729 binding surface 657309009730 TPR motif; other site 657309009731 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 657309009732 binding surface 657309009733 TPR motif; other site 657309009734 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657309009735 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 657309009736 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657309009737 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 657309009738 Flavoprotein; Region: Flavoprotein; pfam02441 657309009739 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 657309009740 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 657309009741 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 657309009742 active site 657309009743 catalytic site [active] 657309009744 substrate binding site [chemical binding]; other site 657309009745 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 657309009746 DNA polymerase III subunit beta; Validated; Region: PRK05643 657309009747 putative DNA binding surface [nucleotide binding]; other site 657309009748 dimer interface [polypeptide binding]; other site 657309009749 beta-clamp/translesion DNA polymerase binding surface; other site 657309009750 beta-clamp/clamp loader binding surface; other site 657309009751 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 657309009752 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 657309009753 FAD binding domain; Region: FAD_binding_4; pfam01565 657309009754 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 657309009755 Domain of unknown function (DUF4348); Region: DUF4348; pfam14254 657309009756 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657309009757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309009758 NAD(P) binding site [chemical binding]; other site 657309009759 active site 657309009760 2-amino-3-ketobutyrate coenzyme A ligase; Provisional; Region: PRK06939 657309009761 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 657309009762 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657309009763 catalytic residue [active] 657309009764 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 657309009765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309009766 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 657309009767 dimer interface [polypeptide binding]; other site 657309009768 phosphorylation site [posttranslational modification] 657309009769 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 657309009770 ATP binding site [chemical binding]; other site 657309009771 Mg2+ binding site [ion binding]; other site 657309009772 G-X-G motif; other site 657309009773 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 657309009774 Ferritin-like domain; Region: Ferritin; pfam00210 657309009775 ferroxidase diiron center [ion binding]; other site 657309009776 aspartate kinase III; Validated; Region: PRK09084 657309009777 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 657309009778 putative catalytic residues [active] 657309009779 nucleotide binding site [chemical binding]; other site 657309009780 aspartate binding site [chemical binding]; other site 657309009781 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 657309009782 dimer interface [polypeptide binding]; other site 657309009783 allosteric regulatory binding pocket; other site 657309009784 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 657309009785 dimer interface [polypeptide binding]; other site 657309009786 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309009787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309009788 Walker A/P-loop; other site 657309009789 ATP binding site [chemical binding]; other site 657309009790 Q-loop/lid; other site 657309009791 ABC transporter signature motif; other site 657309009792 Walker B; other site 657309009793 D-loop; other site 657309009794 H-loop/switch region; other site 657309009795 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 657309009796 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 657309009797 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 657309009798 metal binding site [ion binding]; metal-binding site 657309009799 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 657309009800 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657309009801 catalytic residues [active] 657309009802 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 657309009803 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 657309009804 putative active site [active] 657309009805 oxyanion strand; other site 657309009806 catalytic triad [active] 657309009807 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 657309009808 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 657309009809 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 657309009810 putative active site [active] 657309009811 putative substrate binding site [chemical binding]; other site 657309009812 putative cosubstrate binding site; other site 657309009813 catalytic site [active] 657309009814 DJ-1 family protein; Region: not_thiJ; TIGR01383 657309009815 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 657309009816 conserved cys residue [active] 657309009817 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 657309009818 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657309009819 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309009820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309009821 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309009822 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 657309009823 ligand binding site [chemical binding]; other site 657309009824 flexible hinge region; other site 657309009825 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309009826 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657309009827 coproporphyrinogen III oxidase; Validated; Region: PRK08208 657309009828 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 657309009829 FeS/SAM binding site; other site 657309009830 HemN C-terminal domain; Region: HemN_C; pfam06969 657309009831 Sulfatase; Region: Sulfatase; cl17466 657309009832 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309009833 WGR domain; Region: WGR; cl01581 657309009834 Autotransporter beta-domain; Region: Autotransporter; cl17461 657309009835 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309009836 ligand binding site [chemical binding]; other site 657309009837 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309009838 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309009839 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 657309009840 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 657309009841 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 657309009842 Uncharacterized conserved protein [Function unknown]; Region: COG1359 657309009843 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309009844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309009845 maltose O-acetyltransferase; Provisional; Region: PRK10092 657309009846 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 657309009847 active site 657309009848 substrate binding site [chemical binding]; other site 657309009849 trimer interface [polypeptide binding]; other site 657309009850 CoA binding site [chemical binding]; other site 657309009851 EamA-like transporter family; Region: EamA; pfam00892 657309009852 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 657309009853 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 657309009854 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 657309009855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309009856 homodimer interface [polypeptide binding]; other site 657309009857 catalytic residue [active] 657309009858 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 657309009859 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 657309009860 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 657309009861 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657309009862 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 657309009863 S-adenosylmethionine binding site [chemical binding]; other site 657309009864 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 657309009865 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 657309009866 TPP-binding site; other site 657309009867 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 657309009868 PYR/PP interface [polypeptide binding]; other site 657309009869 dimer interface [polypeptide binding]; other site 657309009870 TPP binding site [chemical binding]; other site 657309009871 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657309009872 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309009873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309009874 Predicted membrane protein [Function unknown]; Region: COG2364 657309009875 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657309009876 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 657309009877 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 657309009878 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 657309009879 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 657309009880 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 657309009881 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657309009882 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 657309009883 protein binding site [polypeptide binding]; other site 657309009884 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 657309009885 Domain interface; other site 657309009886 Peptide binding site; other site 657309009887 Active site tetrad [active] 657309009888 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 657309009889 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657309009890 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657309009891 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309009892 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 657309009893 ligand binding site [chemical binding]; other site 657309009894 flexible hinge region; other site 657309009895 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 657309009896 dimerization interface [polypeptide binding]; other site 657309009897 putative DNA binding site [nucleotide binding]; other site 657309009898 putative Zn2+ binding site [ion binding]; other site 657309009899 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 657309009900 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 657309009901 ResB-like family; Region: ResB; pfam05140 657309009902 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 657309009903 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 657309009904 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 657309009905 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 657309009906 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 657309009907 DsrE/DsrF-like family; Region: DrsE; cl00672 657309009908 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309009909 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309009910 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 657309009911 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 657309009912 FOG: WD40 repeat [General function prediction only]; Region: COG2319 657309009913 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657309009914 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 657309009915 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 657309009916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 657309009917 GAD-like domain; Region: GAD-like; pfam08887 657309009918 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 657309009919 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 657309009920 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 657309009921 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 657309009922 GTPase RsgA; Reviewed; Region: PRK01889 657309009923 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 657309009924 RNA binding site [nucleotide binding]; other site 657309009925 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 657309009926 GTPase/Zn-binding domain interface [polypeptide binding]; other site 657309009927 GTP/Mg2+ binding site [chemical binding]; other site 657309009928 G4 box; other site 657309009929 G5 box; other site 657309009930 G1 box; other site 657309009931 Switch I region; other site 657309009932 G2 box; other site 657309009933 G3 box; other site 657309009934 Switch II region; other site 657309009935 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 657309009936 Protein of unknown function (DUF1062); Region: DUF1062; pfam06353 657309009937 RteC protein; Region: RteC; pfam09357 657309009938 Uncharacterized conserved protein [Function unknown]; Region: COG1359 657309009939 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 657309009940 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309009941 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 657309009942 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 657309009943 active site 657309009944 catalytic site [active] 657309009945 substrate binding site [chemical binding]; other site 657309009946 mannonate dehydratase; Provisional; Region: PRK03906 657309009947 mannonate dehydratase; Region: uxuA; TIGR00695 657309009948 D-mannonate oxidoreductase; Provisional; Region: PRK08277 657309009949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657309009950 NAD(P) binding site [chemical binding]; other site 657309009951 active site 657309009952 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 657309009953 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309009954 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309009955 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309009956 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309009957 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309009958 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309009959 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 657309009960 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 657309009961 biotin synthase; Region: bioB; TIGR00433 657309009962 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 657309009963 FeS/SAM binding site; other site 657309009964 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 657309009965 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 657309009966 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 657309009967 inhibitor-cofactor binding pocket; inhibition site 657309009968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309009969 catalytic residue [active] 657309009970 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 657309009971 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 657309009972 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657309009973 catalytic residue [active] 657309009974 Protein of unknown function (DUF452); Region: DUF452; cl01062 657309009975 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 657309009976 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 657309009977 S-adenosylmethionine binding site [chemical binding]; other site 657309009978 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 657309009979 AAA domain; Region: AAA_26; pfam13500 657309009980 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309009981 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309009982 HEPN domain; Region: HEPN; cl00824 657309009983 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657309009984 active site 657309009985 NTP binding site [chemical binding]; other site 657309009986 metal binding triad [ion binding]; metal-binding site 657309009987 antibiotic binding site [chemical binding]; other site 657309009988 Transposase IS200 like; Region: Y1_Tnp; cl00848 657309009989 PAS fold; Region: PAS_4; pfam08448 657309009990 PAS domain; Region: PAS_9; pfam13426 657309009991 PAS fold; Region: PAS_4; pfam08448 657309009992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309009993 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 657309009994 dimer interface [polypeptide binding]; other site 657309009995 phosphorylation site [posttranslational modification] 657309009996 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 657309009997 ATP binding site [chemical binding]; other site 657309009998 Mg2+ binding site [ion binding]; other site 657309009999 G-X-G motif; other site 657309010000 Response regulator receiver domain; Region: Response_reg; pfam00072 657309010001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309010002 active site 657309010003 phosphorylation site [posttranslational modification] 657309010004 intermolecular recognition site; other site 657309010005 dimerization interface [polypeptide binding]; other site 657309010006 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 657309010007 carboxyltransferase (CT) interaction site; other site 657309010008 biotinylation site [posttranslational modification]; other site 657309010009 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 657309010010 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657309010011 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309010012 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 657309010013 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 657309010014 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657309010015 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 657309010016 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 657309010017 L-lactate permease; Region: Lactate_perm; cl00701 657309010018 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657309010019 Zn2+ binding site [ion binding]; other site 657309010020 Mg2+ binding site [ion binding]; other site 657309010021 AAA domain; Region: AAA_33; pfam13671 657309010022 RNA ligase; Region: RNA_ligase; pfam09414 657309010023 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 657309010024 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 657309010025 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309010026 catalytic residues [active] 657309010027 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657309010028 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309010029 active site 657309010030 phosphorylation site [posttranslational modification] 657309010031 intermolecular recognition site; other site 657309010032 dimerization interface [polypeptide binding]; other site 657309010033 LytTr DNA-binding domain; Region: LytTR; pfam04397 657309010034 Histidine kinase; Region: His_kinase; pfam06580 657309010035 Histidine kinase; Region: His_kinase; pfam06580 657309010036 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010037 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657309010038 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657309010039 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 657309010040 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657309010041 FOG: PKD repeat [General function prediction only]; Region: COG3291 657309010042 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309010043 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309010044 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 657309010045 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309010046 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 657309010047 catalytic site [active] 657309010048 BNR repeat-like domain; Region: BNR_2; pfam13088 657309010049 Asp-box motif; other site 657309010050 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309010051 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309010052 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309010053 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010054 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309010055 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 657309010056 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 657309010057 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309010058 putative substrate translocation pore; other site 657309010059 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 657309010060 catalytic site [active] 657309010061 BNR repeat-like domain; Region: BNR_2; pfam13088 657309010062 Asp-box motif; other site 657309010063 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 657309010064 Class I aldolases; Region: Aldolase_Class_I; cl17187 657309010065 catalytic residue [active] 657309010066 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 657309010067 Kelch motif; Region: Kelch_5; pfam13854 657309010068 Transcriptional regulators [Transcription]; Region: FadR; COG2186 657309010069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657309010070 DNA-binding site [nucleotide binding]; DNA binding site 657309010071 FCD domain; Region: FCD; pfam07729 657309010072 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309010073 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657309010074 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657309010075 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 657309010076 active site 657309010077 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 657309010078 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309010079 Coenzyme A binding pocket [chemical binding]; other site 657309010080 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 657309010081 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 657309010082 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309010083 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 657309010084 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657309010085 FtsX-like permease family; Region: FtsX; pfam02687 657309010086 aspartate aminotransferase; Provisional; Region: PRK07568 657309010087 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 657309010088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309010089 homodimer interface [polypeptide binding]; other site 657309010090 catalytic residue [active] 657309010091 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 657309010092 substrate binding site [chemical binding]; other site 657309010093 trimer interface [polypeptide binding]; other site 657309010094 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657309010095 Mn binding site [ion binding]; other site 657309010096 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 657309010097 dimer interface [polypeptide binding]; other site 657309010098 active site 657309010099 Domain of unknown function (DUF3805); Region: DUF3805; pfam12712 657309010100 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 657309010101 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657309010102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309010103 active site 657309010104 phosphorylation site [posttranslational modification] 657309010105 intermolecular recognition site; other site 657309010106 dimerization interface [polypeptide binding]; other site 657309010107 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 657309010108 DNA binding site [nucleotide binding] 657309010109 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 657309010110 dimer interface [polypeptide binding]; other site 657309010111 phosphorylation site [posttranslational modification] 657309010112 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 657309010113 ATP binding site [chemical binding]; other site 657309010114 Mg2+ binding site [ion binding]; other site 657309010115 G-X-G motif; other site 657309010116 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309010117 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 657309010118 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657309010119 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 657309010120 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 657309010121 TPR motif; other site 657309010122 binding surface 657309010123 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309010124 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 657309010125 TPR motif; other site 657309010126 binding surface 657309010127 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 657309010128 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309010129 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 657309010130 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 657309010131 Uncharacterized conserved protein [Function unknown]; Region: COG3391 657309010132 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 657309010133 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 657309010134 substrate binding site [chemical binding]; other site 657309010135 tetramer interface [polypeptide binding]; other site 657309010136 catalytic residue [active] 657309010137 Predicted acetyltransferase [General function prediction only]; Region: COG2388 657309010138 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 657309010139 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 657309010140 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 657309010141 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657309010142 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 657309010143 dimer interface [polypeptide binding]; other site 657309010144 ssDNA binding site [nucleotide binding]; other site 657309010145 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657309010146 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 657309010147 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657309010148 minor groove reading motif; other site 657309010149 helix-hairpin-helix signature motif; other site 657309010150 substrate binding pocket [chemical binding]; other site 657309010151 active site 657309010152 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 657309010153 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 657309010154 DNA binding and oxoG recognition site [nucleotide binding] 657309010155 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 657309010156 IHF - DNA interface [nucleotide binding]; other site 657309010157 IHF dimer interface [polypeptide binding]; other site 657309010158 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309010159 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309010160 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 657309010161 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 657309010162 active site 657309010163 catalytic residues [active] 657309010164 DNA binding site [nucleotide binding] 657309010165 Int/Topo IB signature motif; other site 657309010166 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 657309010167 replicative DNA helicase; Region: DnaB; TIGR00665 657309010168 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657309010169 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 657309010170 Walker A motif; other site 657309010171 ATP binding site [chemical binding]; other site 657309010172 Walker B motif; other site 657309010173 DNA binding loops [nucleotide binding] 657309010174 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 657309010175 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 657309010176 amidase catalytic site [active] 657309010177 Zn binding residues [ion binding]; other site 657309010178 substrate binding site [chemical binding]; other site 657309010179 Archaeal ATPase; Region: Arch_ATPase; pfam01637 657309010180 AAA domain; Region: AAA_14; pfam13173 657309010181 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657309010182 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309010183 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309010184 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010185 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309010186 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 657309010187 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 657309010188 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 657309010189 dimer interface [polypeptide binding]; other site 657309010190 active site 657309010191 metal binding site [ion binding]; metal-binding site 657309010192 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 657309010193 active site 657309010194 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 657309010195 GtrA-like protein; Region: GtrA; pfam04138 657309010196 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 657309010197 tetramer interfaces [polypeptide binding]; other site 657309010198 binuclear metal-binding site [ion binding]; other site 657309010199 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 657309010200 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010201 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309010202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309010203 active site 657309010204 phosphorylation site [posttranslational modification] 657309010205 intermolecular recognition site; other site 657309010206 dimerization interface [polypeptide binding]; other site 657309010207 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 657309010208 Walker A motif; other site 657309010209 ATP binding site [chemical binding]; other site 657309010210 Walker B motif; other site 657309010211 arginine finger; other site 657309010212 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309010213 Outer membrane efflux protein; Region: OEP; pfam02321 657309010214 Outer membrane efflux protein; Region: OEP; pfam02321 657309010215 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 657309010216 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309010217 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 657309010218 dimer interface [polypeptide binding]; other site 657309010219 phosphorylation site [posttranslational modification] 657309010220 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 657309010221 ATP binding site [chemical binding]; other site 657309010222 Mg2+ binding site [ion binding]; other site 657309010223 G-X-G motif; other site 657309010224 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657309010225 FtsX-like permease family; Region: FtsX; pfam02687 657309010226 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 657309010227 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657309010228 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657309010229 Walker A/P-loop; other site 657309010230 ATP binding site [chemical binding]; other site 657309010231 Q-loop/lid; other site 657309010232 ABC transporter signature motif; other site 657309010233 Walker B; other site 657309010234 D-loop; other site 657309010235 H-loop/switch region; other site 657309010236 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 657309010237 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309010238 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 657309010239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657309010240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309010241 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 657309010242 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309010243 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 657309010244 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657309010245 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 657309010246 active site 657309010247 catalytic motif [active] 657309010248 Zn binding site [ion binding]; other site 657309010249 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309010250 Predicted membrane protein [Function unknown]; Region: COG3059 657309010251 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 657309010252 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 657309010253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657309010254 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 657309010255 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657309010256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309010257 Walker A/P-loop; other site 657309010258 ATP binding site [chemical binding]; other site 657309010259 ABC transporter signature motif; other site 657309010260 Walker B; other site 657309010261 D-loop; other site 657309010262 H-loop/switch region; other site 657309010263 ABC transporter; Region: ABC_tran_2; pfam12848 657309010264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657309010265 Walker A/P-loop; other site 657309010266 ATP binding site [chemical binding]; other site 657309010267 Q-loop/lid; other site 657309010268 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657309010269 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 657309010270 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 657309010271 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 657309010272 putative NADH binding site [chemical binding]; other site 657309010273 putative active site [active] 657309010274 nudix motif; other site 657309010275 putative metal binding site [ion binding]; other site 657309010276 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 657309010277 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309010278 ligand binding site [chemical binding]; other site 657309010279 flexible hinge region; other site 657309010280 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 657309010281 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 657309010282 Predicted membrane protein [Function unknown]; Region: COG2311 657309010283 Protein of unknown function (DUF418); Region: DUF418; cl12135 657309010284 Protein of unknown function (DUF418); Region: DUF418; pfam04235 657309010285 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 657309010286 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 657309010287 active site 657309010288 substrate binding site [chemical binding]; other site 657309010289 metal binding site [ion binding]; metal-binding site 657309010290 Peptidase family C69; Region: Peptidase_C69; pfam03577 657309010291 Peptidase family M23; Region: Peptidase_M23; pfam01551 657309010292 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657309010293 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 657309010294 active site 657309010295 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309010296 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010297 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309010298 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309010299 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 657309010300 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309010301 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309010302 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 657309010303 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 657309010304 hexamer interface [polypeptide binding]; other site 657309010305 ligand binding site [chemical binding]; other site 657309010306 putative active site [active] 657309010307 NAD(P) binding site [chemical binding]; other site 657309010308 Methyltransferase domain; Region: Methyltransf_23; pfam13489 657309010309 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 657309010310 S-adenosylmethionine binding site [chemical binding]; other site 657309010311 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657309010312 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 657309010313 dimer interface [polypeptide binding]; other site 657309010314 active site 657309010315 metal binding site [ion binding]; metal-binding site 657309010316 glutathione binding site [chemical binding]; other site 657309010317 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 657309010318 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 657309010319 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 657309010320 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 657309010321 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 657309010322 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 657309010323 Pirin-related protein [General function prediction only]; Region: COG1741 657309010324 Pirin; Region: Pirin; pfam02678 657309010325 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 657309010326 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 657309010327 putative ligand binding site [chemical binding]; other site 657309010328 putative NAD binding site [chemical binding]; other site 657309010329 catalytic site [active] 657309010330 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 657309010331 Porin subfamily; Region: Porin_2; pfam02530 657309010332 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309010333 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309010334 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 657309010335 DNA binding residues [nucleotide binding] 657309010336 Virulence protein [General function prediction only]; Region: COG3943 657309010337 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657309010338 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 657309010339 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 657309010340 Ligand Binding Site [chemical binding]; other site 657309010341 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 657309010342 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 657309010343 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 657309010344 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 657309010345 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 657309010346 dimerization interface [polypeptide binding]; other site 657309010347 active site 657309010348 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657309010349 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 657309010350 FMN binding site [chemical binding]; other site 657309010351 substrate binding site [chemical binding]; other site 657309010352 putative catalytic residue [active] 657309010353 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 657309010354 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657309010355 catalytic residues [active] 657309010356 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657309010357 EamA-like transporter family; Region: EamA; pfam00892 657309010358 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 657309010359 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 657309010360 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657309010361 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657309010362 G1 box; other site 657309010363 GTP/Mg2+ binding site [chemical binding]; other site 657309010364 Switch I region; other site 657309010365 G2 box; other site 657309010366 G3 box; other site 657309010367 Switch II region; other site 657309010368 G4 box; other site 657309010369 G5 box; other site 657309010370 Nucleoside recognition; Region: Gate; pfam07670 657309010371 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657309010372 Nucleoside recognition; Region: Gate; pfam07670 657309010373 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657309010374 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 657309010375 Ligand Binding Site [chemical binding]; other site 657309010376 TilS substrate C-terminal domain; Region: TilS_C; smart00977 657309010377 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 657309010378 4Fe-4S binding domain; Region: Fer4; pfam00037 657309010379 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 657309010380 transcription termination factor Rho; Provisional; Region: PRK12608 657309010381 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 657309010382 RNA binding site [nucleotide binding]; other site 657309010383 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 657309010384 multimer interface [polypeptide binding]; other site 657309010385 Walker A motif; other site 657309010386 ATP binding site [chemical binding]; other site 657309010387 Walker B motif; other site 657309010388 Sulfatase; Region: Sulfatase; cl17466 657309010389 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309010390 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 657309010391 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657309010392 signal recognition particle protein; Provisional; Region: PRK10867 657309010393 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 657309010394 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 657309010395 P loop; other site 657309010396 GTP binding site [chemical binding]; other site 657309010397 Signal peptide binding domain; Region: SRP_SPB; pfam02978 657309010398 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 657309010399 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 657309010400 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 657309010401 homodimer interface [polypeptide binding]; other site 657309010402 NADP binding site [chemical binding]; other site 657309010403 substrate binding site [chemical binding]; other site 657309010404 putative transposase OrfB; Reviewed; Region: PHA02517 657309010405 Integrase core domain; Region: rve; pfam00665 657309010406 Integrase core domain; Region: rve_3; pfam13683 657309010407 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657309010408 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657309010409 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657309010410 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 657309010411 PspC domain; Region: PspC; pfam04024 657309010412 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 657309010413 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 657309010414 Walker A motif; other site 657309010415 ATP binding site [chemical binding]; other site 657309010416 Walker B motif; other site 657309010417 arginine finger; other site 657309010418 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 657309010419 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 657309010420 Septum formation initiator; Region: DivIC; pfam04977 657309010421 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 657309010422 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 657309010423 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 657309010424 metal binding site [ion binding]; metal-binding site 657309010425 dimer interface [polypeptide binding]; other site 657309010426 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 657309010427 putative catalytic site [active] 657309010428 putative metal binding site [ion binding]; other site 657309010429 putative phosphate binding site [ion binding]; other site 657309010430 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309010431 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 657309010432 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 657309010433 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657309010434 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 657309010435 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 657309010436 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 657309010437 sugar binding site [chemical binding]; other site 657309010438 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 657309010439 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309010440 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309010441 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309010442 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657309010443 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 657309010444 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 657309010445 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 657309010446 active site 657309010447 Fn3 associated; Region: Fn3_assoc; pfam13287 657309010448 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 657309010449 Sulfatase; Region: Sulfatase; cl17466 657309010450 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 657309010451 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 657309010452 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309010453 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 657309010454 dimer interface [polypeptide binding]; other site 657309010455 phosphorylation site [posttranslational modification] 657309010456 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 657309010457 ATP binding site [chemical binding]; other site 657309010458 Mg2+ binding site [ion binding]; other site 657309010459 G-X-G motif; other site 657309010460 Response regulator receiver domain; Region: Response_reg; pfam00072 657309010461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309010462 active site 657309010463 phosphorylation site [posttranslational modification] 657309010464 intermolecular recognition site; other site 657309010465 dimerization interface [polypeptide binding]; other site 657309010466 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 657309010467 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 657309010468 Substrate binding site; other site 657309010469 metal-binding site 657309010470 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 657309010471 Phosphotransferase enzyme family; Region: APH; pfam01636 657309010472 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 657309010473 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309010474 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309010475 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309010476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309010477 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 657309010478 dimer interface [polypeptide binding]; other site 657309010479 phosphorylation site [posttranslational modification] 657309010480 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 657309010481 ATP binding site [chemical binding]; other site 657309010482 Mg2+ binding site [ion binding]; other site 657309010483 G-X-G motif; other site 657309010484 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309010485 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309010486 active site 657309010487 phosphorylation site [posttranslational modification] 657309010488 intermolecular recognition site; other site 657309010489 dimerization interface [polypeptide binding]; other site 657309010490 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309010491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309010492 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 657309010493 active site 657309010494 intersubunit interactions; other site 657309010495 catalytic residue [active] 657309010496 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 657309010497 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 657309010498 putative active site; other site 657309010499 catalytic residue [active] 657309010500 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 657309010501 catalytic core [active] 657309010502 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 657309010503 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 657309010504 active site 657309010505 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309010506 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309010507 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010508 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309010509 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309010510 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 657309010511 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309010512 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309010513 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 657309010514 DNA binding residues [nucleotide binding] 657309010515 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 657309010516 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 657309010517 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 657309010518 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657309010519 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 657309010520 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309010521 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309010522 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309010523 pullulanase, type I; Region: pulA_typeI; TIGR02104 657309010524 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 657309010525 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 657309010526 Ca binding site [ion binding]; other site 657309010527 active site 657309010528 catalytic site [active] 657309010529 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 657309010530 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 657309010531 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 657309010532 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 657309010533 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 657309010534 dimer interface [polypeptide binding]; other site 657309010535 motif 1; other site 657309010536 active site 657309010537 motif 2; other site 657309010538 motif 3; other site 657309010539 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 657309010540 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657309010541 putative substrate translocation pore; other site 657309010542 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 657309010543 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657309010544 minor groove reading motif; other site 657309010545 helix-hairpin-helix signature motif; other site 657309010546 substrate binding pocket [chemical binding]; other site 657309010547 active site 657309010548 Phosphoglycerate kinase; Region: PGK; pfam00162 657309010549 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 657309010550 substrate binding site [chemical binding]; other site 657309010551 hinge regions; other site 657309010552 ADP binding site [chemical binding]; other site 657309010553 catalytic site [active] 657309010554 NMT1/THI5 like; Region: NMT1; pfam09084 657309010555 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 657309010556 membrane-bound complex binding site; other site 657309010557 hinge residues; other site 657309010558 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 657309010559 Predicted membrane protein [Function unknown]; Region: COG2311 657309010560 Protein of unknown function (DUF418); Region: DUF418; pfam04235 657309010561 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 657309010562 binding surface 657309010563 TPR motif; other site 657309010564 TPR repeat; Region: TPR_11; pfam13414 657309010565 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 657309010566 binding surface 657309010567 TPR motif; other site 657309010568 Tetratricopeptide repeat; Region: TPR_12; pfam13424 657309010569 Maf-like protein; Region: Maf; pfam02545 657309010570 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 657309010571 active site 657309010572 dimer interface [polypeptide binding]; other site 657309010573 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 657309010574 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 657309010575 active site 657309010576 motif I; other site 657309010577 motif II; other site 657309010578 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 657309010579 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 657309010580 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 657309010581 putative FMN binding site [chemical binding]; other site 657309010582 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_cladeD; cd03379 657309010583 active site clefts [active] 657309010584 zinc binding site [ion binding]; other site 657309010585 dimer interface [polypeptide binding]; other site 657309010586 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 657309010587 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657309010588 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 657309010589 dimer interface [polypeptide binding]; other site 657309010590 substrate binding site [chemical binding]; other site 657309010591 metal binding site [ion binding]; metal-binding site 657309010592 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 657309010593 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657309010594 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 657309010595 Lamin Tail Domain; Region: LTD; pfam00932 657309010596 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 657309010597 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 657309010598 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 657309010599 carboxyltransferase (CT) interaction site; other site 657309010600 biotinylation site [posttranslational modification]; other site 657309010601 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 657309010602 TPR repeat; Region: TPR_11; pfam13414 657309010603 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 657309010604 binding surface 657309010605 TPR motif; other site 657309010606 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 657309010607 TPR motif; other site 657309010608 binding surface 657309010609 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 657309010610 binding surface 657309010611 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657309010612 TPR motif; other site 657309010613 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 657309010614 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 657309010615 intersubunit interface [polypeptide binding]; other site 657309010616 active site 657309010617 zinc binding site [ion binding]; other site 657309010618 Na+ binding site [ion binding]; other site 657309010619 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 657309010620 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657309010621 AAA domain; Region: AAA_14; pfam13173 657309010622 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657309010623 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657309010624 HlyD family secretion protein; Region: HlyD_3; pfam13437 657309010625 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657309010626 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 657309010627 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 657309010628 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 657309010629 oxaloacetate decarboxylase alpha subunit; Region: oadA; TIGR01108 657309010630 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 657309010631 active site 657309010632 catalytic residues [active] 657309010633 metal binding site [ion binding]; metal-binding site 657309010634 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 657309010635 carboxyltransferase (CT) interaction site; other site 657309010636 biotinylation site [posttranslational modification]; other site 657309010637 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 657309010638 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657309010639 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 657309010640 DNA binding residues [nucleotide binding] 657309010641 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 657309010642 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 657309010643 G1 box; other site 657309010644 putative GEF interaction site [polypeptide binding]; other site 657309010645 GTP/Mg2+ binding site [chemical binding]; other site 657309010646 Switch I region; other site 657309010647 G2 box; other site 657309010648 G3 box; other site 657309010649 Switch II region; other site 657309010650 G4 box; other site 657309010651 G5 box; other site 657309010652 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 657309010653 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 657309010654 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 657309010655 NADP binding site [chemical binding]; other site 657309010656 active site 657309010657 putative substrate binding site [chemical binding]; other site 657309010658 LysE type translocator; Region: LysE; cl00565 657309010659 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 657309010660 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 657309010661 dimerization interface [polypeptide binding]; other site 657309010662 ATP binding site [chemical binding]; other site 657309010663 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 657309010664 dimerization interface [polypeptide binding]; other site 657309010665 ATP binding site [chemical binding]; other site 657309010666 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 657309010667 putative active site [active] 657309010668 catalytic triad [active] 657309010669 Two component regulator propeller; Region: Reg_prop; pfam07494 657309010670 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309010671 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 657309010672 dimer interface [polypeptide binding]; other site 657309010673 phosphorylation site [posttranslational modification] 657309010674 Chromate transporter; Region: Chromate_transp; pfam02417 657309010675 Chromate transporter; Region: Chromate_transp; pfam02417 657309010676 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 657309010677 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 657309010678 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657309010679 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657309010680 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 657309010681 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 657309010682 Carbon starvation protein CstA; Region: CstA; pfam02554 657309010683 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 657309010684 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 657309010685 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 657309010686 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 657309010687 dimer interface [polypeptide binding]; other site 657309010688 active site 657309010689 CoA binding pocket [chemical binding]; other site 657309010690 GTPase Era; Reviewed; Region: era; PRK00089 657309010691 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 657309010692 G1 box; other site 657309010693 GTP/Mg2+ binding site [chemical binding]; other site 657309010694 Switch I region; other site 657309010695 G2 box; other site 657309010696 Switch II region; other site 657309010697 G3 box; other site 657309010698 G4 box; other site 657309010699 G5 box; other site 657309010700 KH domain; Region: KH_2; pfam07650 657309010701 GTP-binding protein Der; Reviewed; Region: PRK00093 657309010702 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 657309010703 G1 box; other site 657309010704 GTP/Mg2+ binding site [chemical binding]; other site 657309010705 Switch I region; other site 657309010706 G2 box; other site 657309010707 Switch II region; other site 657309010708 G3 box; other site 657309010709 G4 box; other site 657309010710 G5 box; other site 657309010711 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 657309010712 G1 box; other site 657309010713 GTP/Mg2+ binding site [chemical binding]; other site 657309010714 Switch I region; other site 657309010715 G2 box; other site 657309010716 G3 box; other site 657309010717 Switch II region; other site 657309010718 G4 box; other site 657309010719 G5 box; other site 657309010720 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 657309010721 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 657309010722 Walker A/P-loop; other site 657309010723 ATP binding site [chemical binding]; other site 657309010724 Q-loop/lid; other site 657309010725 ABC transporter signature motif; other site 657309010726 Walker B; other site 657309010727 D-loop; other site 657309010728 H-loop/switch region; other site 657309010729 Permease; Region: Permease; pfam02405 657309010730 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 657309010731 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 657309010732 Walker A/P-loop; other site 657309010733 ATP binding site [chemical binding]; other site 657309010734 Q-loop/lid; other site 657309010735 ABC transporter signature motif; other site 657309010736 Walker B; other site 657309010737 D-loop; other site 657309010738 H-loop/switch region; other site 657309010739 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 657309010740 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 657309010741 trigger factor; Region: tig; TIGR00115 657309010742 Clp protease; Region: CLP_protease; pfam00574 657309010743 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 657309010744 oligomer interface [polypeptide binding]; other site 657309010745 active site residues [active] 657309010746 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657309010747 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 657309010748 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 657309010749 Walker A motif; other site 657309010750 ATP binding site [chemical binding]; other site 657309010751 Walker B motif; other site 657309010752 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657309010753 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 657309010754 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 657309010755 ATP binding site [chemical binding]; other site 657309010756 putative Mg++ binding site [ion binding]; other site 657309010757 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 657309010758 nucleotide binding region [chemical binding]; other site 657309010759 ATP-binding site [chemical binding]; other site 657309010760 RQC domain; Region: RQC; pfam09382 657309010761 HRDC domain; Region: HRDC; pfam00570 657309010762 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 657309010763 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 657309010764 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 657309010765 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 657309010766 active site 657309010767 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 657309010768 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 657309010769 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 657309010770 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 657309010771 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 657309010772 OstA-like protein; Region: OstA_2; pfam13100 657309010773 Rotavirus RNA-binding Protein 53 (NS53); Region: Rota_NS53; pfam00981 657309010774 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 657309010775 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 657309010776 ATP binding site [chemical binding]; other site 657309010777 Mg2+ binding site [ion binding]; other site 657309010778 G-X-G motif; other site 657309010779 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 657309010780 ATP binding site [chemical binding]; other site 657309010781 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 657309010782 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 657309010783 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657309010784 ligand binding site [chemical binding]; other site 657309010785 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 657309010786 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 657309010787 putative substrate translocation pore; other site 657309010788 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 657309010789 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 657309010790 active site 657309010791 HIGH motif; other site 657309010792 dimer interface [polypeptide binding]; other site 657309010793 KMSKS motif; other site 657309010794 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 657309010795 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657309010796 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309010797 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657309010798 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657309010799 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309010800 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 657309010801 probable substrate binding site [chemical binding]; other site 657309010802 hypothetical protein; Validated; Region: PRK02101 657309010803 maltose O-acetyltransferase; Provisional; Region: PRK10092 657309010804 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 657309010805 active site 657309010806 substrate binding site [chemical binding]; other site 657309010807 trimer interface [polypeptide binding]; other site 657309010808 CoA binding site [chemical binding]; other site 657309010809 adenylosuccinate lyase; Provisional; Region: PRK09285 657309010810 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 657309010811 tetramer interface [polypeptide binding]; other site 657309010812 active site 657309010813 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 657309010814 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 657309010815 putative dimer interface [polypeptide binding]; other site 657309010816 putative anticodon binding site; other site 657309010817 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 657309010818 homodimer interface [polypeptide binding]; other site 657309010819 motif 1; other site 657309010820 motif 2; other site 657309010821 active site 657309010822 motif 3; other site 657309010823 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 657309010824 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 657309010825 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 657309010826 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657309010827 active site 657309010828 catalytic site [active] 657309010829 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 657309010830 starch binding site [chemical binding]; other site 657309010831 Uncharacterized subgroup of the CBM-SusE-F_like superfamily; Region: CBM_SusE-F_like_u1; cd12967 657309010832 starch binding site [chemical binding]; other site 657309010833 SusE outer membrane protein; Region: SusE; pfam14292 657309010834 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 657309010835 starch binding site [chemical binding]; other site 657309010836 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309010837 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309010838 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010839 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309010840 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 657309010841 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 657309010842 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 657309010843 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 657309010844 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657309010845 Ca binding site [ion binding]; other site 657309010846 active site 657309010847 homodimer interface [polypeptide binding]; other site 657309010848 catalytic site [active] 657309010849 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 657309010850 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 657309010851 dimer interface [polypeptide binding]; other site 657309010852 Alkaline phosphatase homologues; Region: alkPPc; smart00098 657309010853 active site 657309010854 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 657309010855 elongation factor P; Validated; Region: PRK00529 657309010856 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 657309010857 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 657309010858 RNA binding site [nucleotide binding]; other site 657309010859 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 657309010860 RNA binding site [nucleotide binding]; other site 657309010861 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 657309010862 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657309010863 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 657309010864 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657309010865 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 657309010866 RNA binding surface [nucleotide binding]; other site 657309010867 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657309010868 active site 657309010869 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 657309010870 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657309010871 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657309010872 NigD-like protein; Region: NigD; pfam12667 657309010873 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 657309010874 active site residue [active] 657309010875 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 657309010876 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657309010877 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657309010878 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 657309010879 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 657309010880 putative catalytic cysteine [active] 657309010881 gamma-glutamyl kinase; Provisional; Region: PRK05429 657309010882 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 657309010883 nucleotide binding site [chemical binding]; other site 657309010884 homotetrameric interface [polypeptide binding]; other site 657309010885 putative phosphate binding site [ion binding]; other site 657309010886 putative allosteric binding site; other site 657309010887 PUA domain; Region: PUA; pfam01472 657309010888 aspartate aminotransferase; Provisional; Region: PRK05764 657309010889 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 657309010890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309010891 homodimer interface [polypeptide binding]; other site 657309010892 catalytic residue [active] 657309010893 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 657309010894 glutamate racemase; Provisional; Region: PRK00865 657309010895 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 657309010896 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 657309010897 periplasmic chaperone; Provisional; Region: PRK10780 657309010898 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 657309010899 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657309010900 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657309010901 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657309010902 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 657309010903 Surface antigen; Region: Bac_surface_Ag; pfam01103 657309010904 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14838 657309010905 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 657309010906 catalytic residue [active] 657309010907 putative FPP diphosphate binding site; other site 657309010908 putative FPP binding hydrophobic cleft; other site 657309010909 dimer interface [polypeptide binding]; other site 657309010910 putative IPP diphosphate binding site; other site 657309010911 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 657309010912 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 657309010913 catalytic motif [active] 657309010914 Zn binding site [ion binding]; other site 657309010915 RibD C-terminal domain; Region: RibD_C; pfam01872 657309010916 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 657309010917 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 657309010918 S-adenosylmethionine binding site [chemical binding]; other site 657309010919 RecX family; Region: RecX; pfam02631 657309010920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657309010921 active site 657309010922 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 657309010923 hydrophobic ligand binding site; other site 657309010924 Lyase; Region: Lyase_1; pfam00206 657309010925 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 657309010926 active sites [active] 657309010927 tetramer interface [polypeptide binding]; other site 657309010928 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 657309010929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657309010930 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 657309010931 DNA binding residues [nucleotide binding] 657309010932 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 657309010933 FecR protein; Region: FecR; pfam04773 657309010934 Secretin and TonB N terminus short domain; Region: STN; pfam07660 657309010935 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309010936 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309010937 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 657309010938 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 657309010939 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309010940 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 657309010941 active site 657309010942 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 657309010943 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309010944 Virulence protein [General function prediction only]; Region: COG3943 657309010945 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657309010946 ORF6N domain; Region: ORF6N; pfam10543 657309010947 VirE N-terminal domain; Region: VirE_N; pfam08800 657309010948 Virulence-associated protein E; Region: VirE; pfam05272 657309010949 Domain of unknonw function from B. Theta Gene description (DUF3874); Region: DUF3874; pfam12990 657309010950 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 657309010951 Medium-chain acyl-CoA synthetase (MACS) of AAE_MA like; Region: MACS_AAE_MA_like; cd05970 657309010952 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 657309010953 active site 657309010954 acyl-activating enzyme (AAE) consensus motif; other site 657309010955 putative CoA binding site [chemical binding]; other site 657309010956 AMP binding site [chemical binding]; other site 657309010957 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 657309010958 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 657309010959 non-specific DNA binding site [nucleotide binding]; other site 657309010960 salt bridge; other site 657309010961 sequence-specific DNA binding site [nucleotide binding]; other site 657309010962 Cupin domain; Region: Cupin_2; pfam07883 657309010963 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 657309010964 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 657309010965 acetylornithine aminotransferase; Provisional; Region: PRK02627 657309010966 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 657309010967 inhibitor-cofactor binding pocket; inhibition site 657309010968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657309010969 catalytic residue [active] 657309010970 hypothetical protein; Reviewed; Region: PRK12275 657309010971 four helix bundle protein; Region: TIGR02436 657309010972 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 657309010973 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657309010974 argininosuccinate synthase; Provisional; Region: PRK13820 657309010975 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657309010976 Ligand Binding Site [chemical binding]; other site 657309010977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657309010978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657309010979 Coenzyme A binding pocket [chemical binding]; other site 657309010980 Arginine repressor [Transcription]; Region: ArgR; COG1438 657309010981 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 657309010982 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 657309010983 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 657309010984 N- and C-terminal domain interface [polypeptide binding]; other site 657309010985 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 657309010986 active site 657309010987 putative catalytic site [active] 657309010988 metal binding site [ion binding]; metal-binding site 657309010989 ATP binding site [chemical binding]; other site 657309010990 carbohydrate binding site [chemical binding]; other site 657309010991 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 657309010992 L-rhamnose isomerase; Provisional; Region: PRK01076 657309010993 rhamnose-proton symporter; Provisional; Region: PRK13499 657309010994 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 657309010995 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 657309010996 intersubunit interface [polypeptide binding]; other site 657309010997 active site 657309010998 Zn2+ binding site [ion binding]; other site 657309010999 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 657309011000 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 657309011001 dimer interface [polypeptide binding]; other site 657309011002 active site 657309011003 metal binding site [ion binding]; metal-binding site 657309011004 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657309011005 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657309011006 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309011007 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 657309011008 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309011009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309011010 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 657309011011 dimer interface [polypeptide binding]; other site 657309011012 phosphorylation site [posttranslational modification] 657309011013 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 657309011014 ATP binding site [chemical binding]; other site 657309011015 Mg2+ binding site [ion binding]; other site 657309011016 G-X-G motif; other site 657309011017 Response regulator receiver domain; Region: Response_reg; pfam00072 657309011018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309011019 active site 657309011020 phosphorylation site [posttranslational modification] 657309011021 intermolecular recognition site; other site 657309011022 dimerization interface [polypeptide binding]; other site 657309011023 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657309011024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309011025 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309011026 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309011027 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 657309011028 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 657309011029 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 657309011030 starch binding outer membrane protein SusD; Region: SusD; cd08977 657309011031 Fasciclin domain; Region: Fasciclin; cl02663 657309011032 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_3; cd11575 657309011033 putative ligand binding site [chemical binding]; other site 657309011034 putative catalytic site [active] 657309011035 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657309011036 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657309011037 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 657309011038 putative active site [active] 657309011039 putative catalytic site [active] 657309011040 beta-D-glucuronidase; Provisional; Region: PRK10150 657309011041 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657309011042 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657309011043 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657309011044 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 657309011045 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657309011046 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657309011047 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657309011048 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 657309011049 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 657309011050 NAD(P) binding site [chemical binding]; other site 657309011051 homotetramer interface [polypeptide binding]; other site 657309011052 homodimer interface [polypeptide binding]; other site 657309011053 active site 657309011054 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657309011055 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657309011056 active site 657309011057 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309011058 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309011059 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 657309011060 active site 657309011061 Uncharacterized conserved protein [Function unknown]; Region: COG3538 657309011062 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 657309011063 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; pfam03663 657309011064 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 657309011065 putative catalytic site [active] 657309011066 putative metal binding site [ion binding]; other site 657309011067 putative phosphate binding site [ion binding]; other site 657309011068 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 657309011069 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 657309011070 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 657309011071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309011072 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 657309011073 dimer interface [polypeptide binding]; other site 657309011074 phosphorylation site [posttranslational modification] 657309011075 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 657309011076 ATP binding site [chemical binding]; other site 657309011077 Mg2+ binding site [ion binding]; other site 657309011078 G-X-G motif; other site 657309011079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657309011080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309011081 active site 657309011082 phosphorylation site [posttranslational modification] 657309011083 intermolecular recognition site; other site 657309011084 dimerization interface [polypeptide binding]; other site 657309011085 Helix-turn-helix domain; Region: HTH_18; pfam12833 657309011086 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657309011087 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309011088 SusE outer membrane protein; Region: SusE; pfam14292 657309011089 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 657309011090 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 657309011091 Cna protein B-type domain; Region: Cna_B_2; pfam13715 657309011092 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 657309011093 starch binding outer membrane protein SusD; Region: SusD; cl17845 657309011094 SusD family; Region: SusD; pfam07980 657309011095 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 657309011096 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 657309011097 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 657309011098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309011099 active site 657309011100 phosphorylation site [posttranslational modification] 657309011101 intermolecular recognition site; other site 657309011102 dimerization interface [polypeptide binding]; other site 657309011103 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 657309011104 Walker A motif; other site 657309011105 ATP binding site [chemical binding]; other site 657309011106 Walker B motif; other site 657309011107 arginine finger; other site 657309011108 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 657309011109 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 657309011110 active site 657309011111 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 657309011112 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 657309011113 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657309011114 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657309011115 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657309011116 multidrug efflux protein; Reviewed; Region: PRK01766 657309011117 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 657309011118 cation binding site [ion binding]; other site 657309011119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657309011120 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 657309011121 dimer interface [polypeptide binding]; other site 657309011122 phosphorylation site [posttranslational modification] 657309011123 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 657309011124 ATP binding site [chemical binding]; other site 657309011125 Mg2+ binding site [ion binding]; other site 657309011126 G-X-G motif; other site 657309011127 Response regulator receiver domain; Region: Response_reg; pfam00072 657309011128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 657309011129 active site 657309011130 phosphorylation site [posttranslational modification] 657309011131 intermolecular recognition site; other site 657309011132 dimerization interface [polypeptide binding]; other site 657309011133 Phosphopantetheine attachment site; Region: PP-binding; cl09936 657309011134 acyl carrier protein; Provisional; Region: acpP; PRK00982 657309011135 Family of unknown function (DUF490); Region: DUF490; pfam04357 657309011136 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 657309011137 active site 657309011138 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 657309011139 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 657309011140 active site 657309011141 Zn binding site [ion binding]; other site 657309011142 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 657309011143 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 657309011144 purine monophosphate binding site [chemical binding]; other site 657309011145 dimer interface [polypeptide binding]; other site 657309011146 putative catalytic residues [active] 657309011147 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 657309011148 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 657309011149 rod shape-determining protein MreB; Provisional; Region: PRK13927 657309011150 MreB and similar proteins; Region: MreB_like; cd10225 657309011151 nucleotide binding site [chemical binding]; other site 657309011152 Mg binding site [ion binding]; other site 657309011153 putative protofilament interaction site [polypeptide binding]; other site 657309011154 RodZ interaction site [polypeptide binding]; other site 657309011155 rod shape-determining protein MreC; Provisional; Region: PRK13922 657309011156 rod shape-determining protein MreC; Region: MreC; pfam04085 657309011157 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 657309011158 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 657309011159 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657309011160 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657309011161 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 657309011162 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 657309011163 GldH lipoprotein; Region: GldH_lipo; cl11905 657309011164 PSP1 C-terminal conserved region; Region: PSP1; cl00770 657309011165 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 657309011166 DNA polymerase III subunit delta'; Validated; Region: PRK05564 657309011167 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 657309011168 FAD binding site [chemical binding]; other site 657309011169 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 657309011170 Ferritin-like domain; Region: Ferritin; pfam00210 657309011171 diiron binding motif [ion binding]; other site 657309011172 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 657309011173 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 657309011174 Catalytic site [active] 657309011175 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657309011176 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664