-- dump date 20120504_131452 -- class Genbank::misc_feature -- table misc_feature_note -- id note 568816000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 568816000002 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 568816000003 Walker A motif; other site 568816000004 ATP binding site [chemical binding]; other site 568816000005 Walker B motif; other site 568816000006 arginine finger; other site 568816000007 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 568816000008 DnaA box-binding interface [nucleotide binding]; other site 568816000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 568816000010 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 568816000011 putative DNA binding surface [nucleotide binding]; other site 568816000012 dimer interface [polypeptide binding]; other site 568816000013 beta-clamp/clamp loader binding surface; other site 568816000014 beta-clamp/translesion DNA polymerase binding surface; other site 568816000015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000016 AAA domain; Region: AAA_23; pfam13476 568816000017 Walker A/P-loop; other site 568816000018 ATP binding site [chemical binding]; other site 568816000019 Q-loop/lid; other site 568816000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000021 ABC transporter signature motif; other site 568816000022 Walker B; other site 568816000023 D-loop; other site 568816000024 H-loop/switch region; other site 568816000025 Protein of unknown function (DUF721); Region: DUF721; cl02324 568816000026 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 568816000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 568816000028 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 568816000029 ATP binding site [chemical binding]; other site 568816000030 Mg2+ binding site [ion binding]; other site 568816000031 G-X-G motif; other site 568816000032 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 568816000033 anchoring element; other site 568816000034 dimer interface [polypeptide binding]; other site 568816000035 ATP binding site [chemical binding]; other site 568816000036 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 568816000037 active site 568816000038 putative metal-binding site [ion binding]; other site 568816000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 568816000040 Thiamine pyrophosphokinase; Region: TPK; cd07995 568816000041 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 568816000042 active site 568816000043 dimerization interface [polypeptide binding]; other site 568816000044 thiamine binding site [chemical binding]; other site 568816000045 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 568816000046 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 568816000047 DNA gyrase subunit A; Validated; Region: PRK05560 568816000048 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 in DNA...; Region: TOP4c; cd00187 568816000049 CAP-like domain; other site 568816000050 active site 568816000051 primary dimer interface [polypeptide binding]; other site 568816000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568816000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568816000054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568816000055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568816000056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568816000057 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568816000058 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 568816000059 putative transposase OrfB; Reviewed; Region: PHA02517 568816000060 HTH-like domain; Region: HTH_21; pfam13276 568816000061 Integrase core domain; Region: rve; cl01316 568816000062 Integrase core domain; Region: rve_3; cl15866 568816000063 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 568816000064 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 568816000065 Protein of unknown function (DUF805); Region: DUF805; cl01224 568816000066 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 568816000067 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 568816000068 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 568816000069 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 568816000070 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 568816000071 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 568816000072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816000073 homodimer interface [polypeptide binding]; other site 568816000074 catalytic residue [active] 568816000075 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 568816000076 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 568816000077 NeuB family; Region: NeuB; cl00496 568816000078 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 568816000079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816000080 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 568816000081 active site 568816000082 dimer interface [polypeptide binding]; other site 568816000083 metal binding site [ion binding]; metal-binding site 568816000084 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 568816000085 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 568816000086 hinge; other site 568816000087 active site 568816000088 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 568816000089 Tetramer interface [polypeptide binding]; other site 568816000090 active site 568816000091 FMN-binding site [chemical binding]; other site 568816000092 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 568816000093 Prephenate dehydratase; Region: PDT; pfam00800 568816000094 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 568816000095 putative L-Phe binding site [chemical binding]; other site 568816000096 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 568816000097 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 568816000098 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 568816000099 shikimate binding site; other site 568816000100 NAD(P) binding site [chemical binding]; other site 568816000101 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 568816000102 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 568816000103 ADP binding site [chemical binding]; other site 568816000104 magnesium binding site [ion binding]; other site 568816000105 putative shikimate binding site; other site 568816000106 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 568816000107 active site 568816000108 catalytic residues [active] 568816000109 metal binding site [ion binding]; metal-binding site 568816000110 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 568816000111 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 568816000112 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 568816000113 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 568816000114 shikimate binding site; other site 568816000115 NAD(P) binding site [chemical binding]; other site 568816000116 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 568816000117 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816000118 DctM-like transporters; Region: DctM; pfam06808 568816000119 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568816000120 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568816000121 EamA-like transporter family; Region: EamA; cl01037 568816000122 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816000123 EamA-like transporter family; Region: EamA; cl01037 568816000124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000125 Helix-turn-helix domains; Region: HTH; cl00088 568816000126 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816000127 dimerization interface [polypeptide binding]; other site 568816000128 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 568816000129 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568816000130 PYR/PP interface [polypeptide binding]; other site 568816000131 dimer interface [polypeptide binding]; other site 568816000132 TPP binding site [chemical binding]; other site 568816000133 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 568816000134 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 568816000135 TPP-binding site [chemical binding]; other site 568816000136 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 568816000137 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 568816000138 tetramer interface [polypeptide binding]; other site 568816000139 active site 568816000140 Mg2+/Mn2+ binding site [ion binding]; other site 568816000141 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000143 Helix-turn-helix domains; Region: HTH; cl00088 568816000144 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816000145 dimerization interface [polypeptide binding]; other site 568816000146 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 568816000147 putative catalytic cysteine [active] 568816000148 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 568816000149 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 568816000150 Walker A motif; other site 568816000151 ATP binding site [chemical binding]; other site 568816000152 Walker B motif; other site 568816000153 arginine finger; other site 568816000154 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 568816000155 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 568816000156 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 568816000157 active site 568816000158 catalytic residue [active] 568816000159 dimer interface [polypeptide binding]; other site 568816000160 shikimate kinase; Reviewed; Region: aroK; PRK00131 568816000161 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 568816000162 ADP binding site [chemical binding]; other site 568816000163 magnesium binding site [ion binding]; other site 568816000164 putative shikimate binding site; other site 568816000165 Mechanosensitive ion channel; Region: MS_channel; pfam00924 568816000166 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 568816000167 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 568816000168 MOFRL family; Region: MOFRL; pfam05161 568816000169 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 568816000170 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816000171 metal binding site [ion binding]; metal-binding site 568816000172 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 568816000173 ThiC family; Region: ThiC; cl08031 568816000174 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816000175 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 568816000176 PYR/PP interface [polypeptide binding]; other site 568816000177 dimer interface [polypeptide binding]; other site 568816000178 TPP binding site [chemical binding]; other site 568816000179 substrate binding site [chemical binding]; other site 568816000180 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568816000181 Domain of unknown function; Region: EKR; cl11037 568816000182 4Fe-4S binding domain; Region: Fer4; cl02805 568816000183 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 568816000184 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 568816000185 TPP-binding site [chemical binding]; other site 568816000186 dimer interface [polypeptide binding]; other site 568816000187 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816000188 DctM-like transporters; Region: DctM; pfam06808 568816000189 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 568816000190 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 568816000191 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; cl15306 568816000192 substrate binding pocket [chemical binding]; other site 568816000193 membrane-bound complex binding site; other site 568816000194 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 568816000195 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 568816000196 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 568816000197 PhoU domain; Region: PhoU; pfam01895 568816000198 PhoU domain; Region: PhoU; pfam01895 568816000199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816000200 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000201 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 568816000202 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 568816000203 active site 568816000204 dimer interface [polypeptide binding]; other site 568816000205 effector binding site; other site 568816000206 TSCPD domain; Region: TSCPD; cl14834 568816000207 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08332 568816000208 Sulfatase; Region: Sulfatase; cl10460 568816000209 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 568816000210 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 568816000211 Ligand binding site; other site 568816000212 metal-binding site 568816000213 O-Antigen ligase; Region: Wzy_C; cl04850 568816000214 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 568816000215 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568816000216 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 568816000217 putative active site [active] 568816000218 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 568816000219 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 568816000220 Ligand binding site; other site 568816000221 metal-binding site 568816000222 Predicted amidohydrolase [General function prediction only]; Region: COG0388 568816000223 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 568816000224 putative active site [active] 568816000225 catalytic triad [active] 568816000226 dimer interface [polypeptide binding]; other site 568816000227 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568816000228 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 568816000229 putative NAD(P) binding site [chemical binding]; other site 568816000230 active site 568816000231 putative substrate binding site [chemical binding]; other site 568816000232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816000233 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000234 Sulfatase; Region: Sulfatase; cl10460 568816000235 Protein of unknown function, DUF488; Region: DUF488; cl01246 568816000236 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 568816000237 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816000238 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816000239 trigger factor; Provisional; Region: tig; PRK01490 568816000240 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 568816000241 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 568816000242 Clp protease; Region: CLP_protease; pfam00574 568816000243 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 568816000244 oligomer interface [polypeptide binding]; other site 568816000245 active site residues [active] 568816000246 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 568816000247 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 568816000248 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 568816000249 Walker A motif; other site 568816000250 ATP binding site [chemical binding]; other site 568816000251 Walker B motif; other site 568816000252 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 568816000253 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 568816000254 Found in ATP-dependent protease La (LON); Region: LON; smart00464 568816000255 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 568816000256 Walker A motif; other site 568816000257 ATP binding site [chemical binding]; other site 568816000258 Walker B motif; other site 568816000259 arginine finger; other site 568816000260 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 568816000261 Predicted GTPase [General function prediction only]; Region: COG0218 568816000262 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 568816000263 G1 box; other site 568816000264 GTP/Mg2+ binding site [chemical binding]; other site 568816000265 Switch I region; other site 568816000266 G2 box; other site 568816000267 G3 box; other site 568816000268 Switch II region; other site 568816000269 G4 box; other site 568816000270 G5 box; other site 568816000271 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 568816000272 putative active site [active] 568816000273 putative CoA binding site [chemical binding]; other site 568816000274 nudix motif; other site 568816000275 metal binding site [ion binding]; metal-binding site 568816000276 Cation efflux family; Region: Cation_efflux; cl00316 568816000277 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 568816000278 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 568816000279 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 568816000280 Type II/IV secretion system protein; Region: T2SE; pfam00437 568816000281 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 568816000282 Walker A motif; other site 568816000283 ATP binding site [chemical binding]; other site 568816000284 Walker B motif; other site 568816000285 UPF0126 domain; Region: UPF0126; pfam03458 568816000286 UPF0126 domain; Region: UPF0126; pfam03458 568816000287 Protein of unknown function (DUF520); Region: DUF520; cl00723 568816000288 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 568816000289 excinuclease ABC subunit B; Provisional; Region: PRK05298 568816000290 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 568816000291 ATP binding site [chemical binding]; other site 568816000292 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 568816000293 nucleotide binding region [chemical binding]; other site 568816000294 ATP-binding site [chemical binding]; other site 568816000295 Ultra-violet resistance protein B; Region: UvrB; pfam12344 568816000296 UvrB/uvrC motif; Region: UVR; pfam02151 568816000297 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 568816000298 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 568816000299 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 568816000300 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 568816000301 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 568816000302 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 568816000303 GIY-YIG motif/motif A; other site 568816000304 active site 568816000305 catalytic site [active] 568816000306 putative DNA binding site [nucleotide binding]; other site 568816000307 metal binding site [ion binding]; metal-binding site 568816000308 UvrB/uvrC motif; Region: UVR; pfam02151 568816000309 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 568816000310 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 568816000311 Rubredoxin; Region: Rubredoxin; pfam00301 568816000312 iron binding site [ion binding]; other site 568816000313 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 568816000314 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 568816000315 active site 568816000316 motif I; other site 568816000317 motif II; other site 568816000318 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 568816000319 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 568816000320 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 568816000321 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 568816000322 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 568816000323 phosphate binding site [ion binding]; other site 568816000324 putative substrate binding pocket [chemical binding]; other site 568816000325 dimer interface [polypeptide binding]; other site 568816000326 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 568816000327 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 568816000328 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 568816000329 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 568816000330 putative active site [active] 568816000331 putative metal binding site [ion binding]; other site 568816000332 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 568816000333 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 568816000334 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 568816000335 FeS/SAM binding site; other site 568816000336 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 568816000337 potential protein location (transposase [Acidaminococcus intestini RyC-MR95]) that overlaps RNA (5S ribosomal RNA) 568816000338 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 568816000339 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 568816000340 putative valine binding site [chemical binding]; other site 568816000341 dimer interface [polypeptide binding]; other site 568816000342 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 568816000343 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 568816000344 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568816000345 PYR/PP interface [polypeptide binding]; other site 568816000346 dimer interface [polypeptide binding]; other site 568816000347 TPP binding site [chemical binding]; other site 568816000348 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 568816000349 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 568816000350 TPP-binding site [chemical binding]; other site 568816000351 dimer interface [polypeptide binding]; other site 568816000352 ketol-acid reductoisomerase; Provisional; Region: PRK05479 568816000353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816000354 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 568816000355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000356 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 568816000357 Membrane transport protein; Region: Mem_trans; cl09117 568816000358 Dehydratase family; Region: ILVD_EDD; cl00340 568816000359 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816000360 peptidase T-like protein; Region: PepT-like; TIGR01883 568816000361 metal binding site [ion binding]; metal-binding site 568816000362 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 568816000363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816000364 DNA-binding site [nucleotide binding]; DNA binding site 568816000365 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 568816000366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816000367 homodimer interface [polypeptide binding]; other site 568816000368 catalytic residue [active] 568816000369 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 568816000370 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 568816000371 metal binding site [ion binding]; metal-binding site 568816000372 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816000373 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000374 Walker A/P-loop; other site 568816000375 ATP binding site [chemical binding]; other site 568816000376 Q-loop/lid; other site 568816000377 ABC transporter signature motif; other site 568816000378 Walker B; other site 568816000379 D-loop; other site 568816000380 H-loop/switch region; other site 568816000381 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 568816000382 ABC-ATPase subunit interface; other site 568816000383 dimer interface [polypeptide binding]; other site 568816000384 putative PBP binding regions; other site 568816000385 ferric uptake regulator; Provisional; Region: fur; PRK09462 568816000386 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 568816000387 metal binding site 2 [ion binding]; metal-binding site 568816000388 putative DNA binding helix; other site 568816000389 metal binding site 1 [ion binding]; metal-binding site 568816000390 dimer interface [polypeptide binding]; other site 568816000391 structural Zn2+ binding site [ion binding]; other site 568816000392 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 568816000393 FMN binding site [chemical binding]; other site 568816000394 dimer interface [polypeptide binding]; other site 568816000395 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000396 Helix-turn-helix domains; Region: HTH; cl00088 568816000397 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816000398 dimerization interface [polypeptide binding]; other site 568816000399 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816000400 Citrate transporter; Region: CitMHS; pfam03600 568816000401 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 568816000402 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568816000403 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 568816000404 putative ligand binding site [chemical binding]; other site 568816000405 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 568816000406 TM-ABC transporter signature motif; other site 568816000407 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 568816000408 TM-ABC transporter signature motif; other site 568816000409 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568816000410 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 568816000411 Walker A/P-loop; other site 568816000412 ATP binding site [chemical binding]; other site 568816000413 Q-loop/lid; other site 568816000414 ABC transporter signature motif; other site 568816000415 Walker B; other site 568816000416 D-loop; other site 568816000417 H-loop/switch region; other site 568816000418 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568816000419 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 568816000420 Walker A/P-loop; other site 568816000421 ATP binding site [chemical binding]; other site 568816000422 Q-loop/lid; other site 568816000423 ABC transporter signature motif; other site 568816000424 Walker B; other site 568816000425 D-loop; other site 568816000426 H-loop/switch region; other site 568816000427 FOG: CBS domain [General function prediction only]; Region: COG0517 568816000428 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 568816000429 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816000430 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 568816000431 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816000432 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816000433 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 568816000434 metal binding site [ion binding]; metal-binding site 568816000435 dipeptidase PepV; Reviewed; Region: PRK07318 568816000436 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 568816000437 active site 568816000438 metal binding site [ion binding]; metal-binding site 568816000439 Protein of unknown function DUF111; Region: DUF111; cl03398 568816000440 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 568816000441 AIR carboxylase; Region: AIRC; cl00310 568816000442 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 568816000443 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 568816000444 Ligand Binding Site [chemical binding]; other site 568816000445 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 568816000446 AAA domain; Region: AAA_26; pfam13500 568816000447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000448 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000449 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 568816000450 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 568816000451 inhibitor-cofactor binding pocket; inhibition site 568816000452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816000453 catalytic residue [active] 568816000454 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 568816000455 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 568816000456 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 568816000457 active site 568816000458 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 568816000459 Domain of unknown function DUF; Region: DUF204; pfam02659 568816000460 Domain of unknown function DUF; Region: DUF204; pfam02659 568816000461 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 568816000462 active site 568816000463 DNA polymerase IV; Validated; Region: PRK02406 568816000464 DNA binding site [nucleotide binding] 568816000465 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 568816000466 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 568816000467 Ligand Binding Site [chemical binding]; other site 568816000468 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 568816000469 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 568816000470 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 568816000471 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 568816000472 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816000473 catalytic residue [active] 568816000474 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 568816000475 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 568816000476 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 568816000477 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 568816000478 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 568816000479 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816000480 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816000481 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 568816000482 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 568816000483 Walker A/P-loop; other site 568816000484 ATP binding site [chemical binding]; other site 568816000485 Q-loop/lid; other site 568816000486 ABC transporter signature motif; other site 568816000487 Walker B; other site 568816000488 D-loop; other site 568816000489 H-loop/switch region; other site 568816000490 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 568816000491 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 568816000492 Walker A/P-loop; other site 568816000493 ATP binding site [chemical binding]; other site 568816000494 Q-loop/lid; other site 568816000495 ABC transporter signature motif; other site 568816000496 Walker B; other site 568816000497 D-loop; other site 568816000498 H-loop/switch region; other site 568816000499 ABC-2 type transporter; Region: ABC2_membrane; cl11417 568816000500 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568816000501 ABC-2 type transporter; Region: ABC2_membrane; cl11417 568816000502 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816000503 MatE; Region: MatE; cl10513 568816000504 MatE; Region: MatE; cl10513 568816000505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000506 Helix-turn-helix domains; Region: HTH; cl00088 568816000507 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816000508 dimerization interface [polypeptide binding]; other site 568816000509 PrpF protein; Region: PrpF; pfam04303 568816000510 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 568816000511 putative hydratase; Provisional; Region: PRK11413 568816000512 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816000513 substrate binding site [chemical binding]; other site 568816000514 ligand binding site [chemical binding]; other site 568816000515 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 568816000516 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 568816000517 substrate binding site [chemical binding]; other site 568816000518 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 568816000519 Citrate transporter; Region: CitMHS; pfam03600 568816000520 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 568816000521 oxaloacetate decarboxylase; Provisional; Region: PRK12331 568816000522 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816000523 active site 568816000524 catalytic residues [active] 568816000525 metal binding site [ion binding]; metal-binding site 568816000526 homodimer binding site [polypeptide binding]; other site 568816000527 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816000528 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 568816000529 Walker A/P-loop; other site 568816000530 ATP binding site [chemical binding]; other site 568816000531 Q-loop/lid; other site 568816000532 ABC transporter signature motif; other site 568816000533 Walker B; other site 568816000534 D-loop; other site 568816000535 H-loop/switch region; other site 568816000536 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816000537 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 568816000538 Walker A/P-loop; other site 568816000539 ATP binding site [chemical binding]; other site 568816000540 Q-loop/lid; other site 568816000541 ABC transporter signature motif; other site 568816000542 Walker B; other site 568816000543 D-loop; other site 568816000544 H-loop/switch region; other site 568816000545 Cobalt transport protein; Region: CbiQ; cl00463 568816000546 V-type ATP synthase subunit I; Validated; Region: PRK05771 568816000547 ATP synthase subunit C; Region: ATP-synt_C; cl00466 568816000548 ATP synthase subunit C; Region: ATP-synt_C; cl00466 568816000549 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 568816000550 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 568816000551 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 568816000552 V-type ATP synthase subunit A; Provisional; Region: PRK04192 568816000553 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 568816000554 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 568816000555 Walker A motif/ATP binding site; other site 568816000556 Walker B motif; other site 568816000557 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816000558 V-type ATP synthase subunit B; Provisional; Region: PRK04196 568816000559 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 568816000560 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 568816000561 Walker A motif homologous position; other site 568816000562 Walker B motif; other site 568816000563 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816000564 ATP synthase subunit D; Region: ATP-synt_D; cl00613 568816000565 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 568816000566 active site 568816000567 catalytic triad [active] 568816000568 oxyanion hole [active] 568816000569 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816000570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816000571 active site 568816000572 phosphorylation site [posttranslational modification] 568816000573 intermolecular recognition site; other site 568816000574 dimerization interface [polypeptide binding]; other site 568816000575 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 568816000576 DNA binding site [nucleotide binding] 568816000577 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 568816000578 dimerization interface [polypeptide binding]; other site 568816000579 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 568816000580 dimer interface [polypeptide binding]; other site 568816000581 phosphorylation site [posttranslational modification] 568816000582 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 568816000583 ATP binding site [chemical binding]; other site 568816000584 Mg2+ binding site [ion binding]; other site 568816000585 G-X-G motif; other site 568816000586 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 568816000587 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 568816000588 FeS/SAM binding site; other site 568816000589 hypothetical protein; Provisional; Region: PRK03881 568816000590 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 568816000591 AMMECR1; Region: AMMECR1; cl00911 568816000592 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 568816000593 Fe-S cluster binding site [ion binding]; other site 568816000594 active site 568816000595 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 568816000596 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 568816000597 ApbE family; Region: ApbE; cl00643 568816000598 ferredoxin; Validated; Region: PRK07118 568816000599 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 568816000600 4Fe-4S binding domain; Region: Fer4; cl02805 568816000601 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 568816000602 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 568816000603 FMN-binding domain; Region: FMN_bind; cl01081 568816000604 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 568816000605 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 568816000606 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 568816000607 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 568816000608 SLBB domain; Region: SLBB; pfam10531 568816000609 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 568816000610 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816000611 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 568816000612 FeS/SAM binding site; other site 568816000613 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 568816000614 NlpC/P60 family; Region: NLPC_P60; cl11438 568816000615 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 568816000616 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 568816000617 Walker A motif; other site 568816000618 ATP binding site [chemical binding]; other site 568816000619 Walker B motif; other site 568816000620 arginine finger; other site 568816000621 Helix-turn-helix domains; Region: HTH; cl00088 568816000622 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 568816000623 S-adenosylmethionine binding site [chemical binding]; other site 568816000624 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 568816000625 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 568816000626 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 568816000627 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816000628 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 568816000629 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 568816000630 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 568816000631 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 568816000632 homodimer interface [polypeptide binding]; other site 568816000633 NADP binding site [chemical binding]; other site 568816000634 substrate binding site [chemical binding]; other site 568816000635 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 568816000636 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 568816000637 AMP-binding enzyme; Region: AMP-binding; cl15778 568816000638 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 568816000639 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 568816000640 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 568816000641 putative peptidoglycan binding site; other site 568816000642 Carbon starvation protein CstA; Region: CstA; pfam02554 568816000643 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 568816000644 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 568816000645 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 568816000646 homodimer interface [polypeptide binding]; other site 568816000647 substrate-cofactor binding pocket; other site 568816000648 catalytic residue [active] 568816000649 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816000650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568816000651 ligand binding site [chemical binding]; other site 568816000652 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568816000653 FAD binding domain; Region: FAD_binding_4; pfam01565 568816000654 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 568816000655 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568816000656 NAD-dependent deacetylase; Provisional; Region: PRK00481 568816000657 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 568816000658 seryl-tRNA synthetase; Provisional; Region: PRK05431 568816000659 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 568816000660 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 bound...; Region: SerRS_core; cd00770 568816000661 dimer interface [polypeptide binding]; other site 568816000662 active site 568816000663 motif 1; other site 568816000664 motif 2; other site 568816000665 motif 3; other site 568816000666 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 568816000667 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 568816000668 active site 568816000669 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816000670 dimer interface [polypeptide binding]; other site 568816000671 catalytic residues [active] 568816000672 substrate binding site [chemical binding]; other site 568816000673 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 568816000674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816000675 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816000676 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 568816000677 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 568816000678 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 568816000679 dimer interface [polypeptide binding]; other site 568816000680 conserved gate region; other site 568816000681 putative PBP binding loops; other site 568816000682 ABC-ATPase subunit interface; other site 568816000683 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 568816000684 dimer interface [polypeptide binding]; other site 568816000685 conserved gate region; other site 568816000686 putative PBP binding loops; other site 568816000687 ABC-ATPase subunit interface; other site 568816000688 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 568816000689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000690 Walker A/P-loop; other site 568816000691 ATP binding site [chemical binding]; other site 568816000692 Q-loop/lid; other site 568816000693 ABC transporter signature motif; other site 568816000694 Walker B; other site 568816000695 D-loop; other site 568816000696 H-loop/switch region; other site 568816000697 TOBE domain; Region: TOBE_2; cl01440 568816000698 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 568816000699 homotrimer interaction site [polypeptide binding]; other site 568816000700 putative active site [active] 568816000701 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 568816000702 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816000703 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 568816000704 putative transposase OrfB; Reviewed; Region: PHA02517 568816000705 HTH-like domain; Region: HTH_21; pfam13276 568816000706 Integrase core domain; Region: rve; cl01316 568816000707 Integrase core domain; Region: rve_3; cl15866 568816000708 Arginase family; Region: Arginase; cl00306 568816000709 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568816000710 Helix-turn-helix domains; Region: HTH; cl00088 568816000711 Bacterial transcriptional regulator; Region: IclR; pfam01614 568816000712 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 568816000713 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 568816000714 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816000715 catalytic residue [active] 568816000716 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 568816000717 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 568816000718 tetramer interface [polypeptide binding]; other site 568816000719 catalytic Zn binding site [ion binding]; other site 568816000720 NADP binding site [chemical binding]; other site 568816000721 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 568816000722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000723 LemA family; Region: LemA; cl00742 568816000724 Repair protein; Region: Repair_PSII; cl01535 568816000725 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 568816000726 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 568816000727 FeS/SAM binding site; other site 568816000728 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 568816000729 putative transposase OrfB; Reviewed; Region: PHA02517 568816000730 HTH-like domain; Region: HTH_21; pfam13276 568816000731 Integrase core domain; Region: rve; cl01316 568816000732 Integrase core domain; Region: rve_3; cl15866 568816000733 ZIP Zinc transporter; Region: Zip; pfam02535 568816000734 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 568816000735 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 568816000736 metal-binding site [ion binding] 568816000737 GTPase CgtA; Reviewed; Region: obgE; PRK12297 568816000738 GTP1/OBG; Region: GTP1_OBG; pfam01018 568816000739 Obg GTPase; Region: Obg; cd01898 568816000740 G1 box; other site 568816000741 GTP/Mg2+ binding site [chemical binding]; other site 568816000742 Switch I region; other site 568816000743 G2 box; other site 568816000744 G3 box; other site 568816000745 Switch II region; other site 568816000746 G4 box; other site 568816000747 G5 box; other site 568816000748 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 568816000749 gamma-glutamyl kinase; Provisional; Region: PRK05429 568816000750 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 568816000751 nucleotide binding site [chemical binding]; other site 568816000752 homotetrameric interface [polypeptide binding]; other site 568816000753 putative phosphate binding site [ion binding]; other site 568816000754 putative allosteric binding site; other site 568816000755 PUA domain; Region: PUA; cl00607 568816000756 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 568816000757 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 568816000758 putative catalytic cysteine [active] 568816000759 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568816000760 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816000761 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816000762 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 568816000763 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 568816000764 Walker A/P-loop; other site 568816000765 ATP binding site [chemical binding]; other site 568816000766 Q-loop/lid; other site 568816000767 ABC transporter signature motif; other site 568816000768 Walker B; other site 568816000769 D-loop; other site 568816000770 H-loop/switch region; other site 568816000771 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 568816000772 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 568816000773 FtsX-like permease family; Region: FtsX; cl15850 568816000774 LamB/YcsF family; Region: LamB_YcsF; cl00664 568816000775 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 568816000776 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 568816000777 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 568816000778 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 568816000779 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816000780 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816000781 metal binding site [ion binding]; metal-binding site 568816000782 dimer interface [polypeptide binding]; other site 568816000783 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816000784 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816000785 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 568816000786 putative active site [active] 568816000787 nucleotide binding site [chemical binding]; other site 568816000788 nudix motif; other site 568816000789 putative metal binding site [ion binding]; other site 568816000790 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 568816000791 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816000792 minor groove reading motif; other site 568816000793 helix-hairpin-helix signature motif; other site 568816000794 substrate binding pocket [chemical binding]; other site 568816000795 active site 568816000796 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 568816000797 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 568816000798 DNA binding and oxoG recognition site [nucleotide binding] 568816000799 FtsH Extracellular; Region: FtsH_ext; pfam06480 568816000800 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 568816000801 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 568816000802 Walker A motif; other site 568816000803 ATP binding site [chemical binding]; other site 568816000804 Walker B motif; other site 568816000805 arginine finger; other site 568816000806 Peptidase family M41; Region: Peptidase_M41; pfam01434 568816000807 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 568816000808 HutD; Region: HutD; cl01532 568816000809 glutamate formiminotransferase; Region: FtcD; TIGR02024 568816000810 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 568816000811 Formiminotransferase domain; Region: FTCD; pfam02971 568816000812 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 568816000813 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 568816000814 Potassium binding sites [ion binding]; other site 568816000815 Cesium cation binding sites [ion binding]; other site 568816000816 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 568816000817 PAS fold; Region: PAS; pfam00989 568816000818 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 568816000819 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 568816000820 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 568816000821 Walker A motif; other site 568816000822 ATP binding site [chemical binding]; other site 568816000823 Walker B motif; other site 568816000824 arginine finger; other site 568816000825 Helix-turn-helix domains; Region: HTH; cl00088 568816000826 BCCT family transporter; Region: BCCT; cl00569 568816000827 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 568816000828 active sites [active] 568816000829 tetramer interface [polypeptide binding]; other site 568816000830 Predicted permease [General function prediction only]; Region: COG2056 568816000831 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 568816000832 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 568816000833 active sites [active] 568816000834 tetramer interface [polypeptide binding]; other site 568816000835 urocanate hydratase; Provisional; Region: PRK05414 568816000836 imidazolonepropionase; Validated; Region: PRK09356 568816000837 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 568816000838 active site 568816000839 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 568816000840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816000841 Predicted ATPase [General function prediction only]; Region: COG3899 568816000842 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 568816000843 binding surface 568816000844 TPR motif; other site 568816000845 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 568816000846 binding surface 568816000847 TPR motif; other site 568816000848 DRTGG domain; Region: DRTGG; cl12147 568816000849 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 568816000850 ATP binding site [chemical binding]; other site 568816000851 G-X-G motif; other site 568816000852 ferredoxin; Validated; Region: PRK07118 568816000853 4Fe-4S binding domain; Region: Fer4; cl02805 568816000854 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816000855 Putative Fe-S cluster; Region: FeS; pfam04060 568816000856 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 568816000857 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 568816000858 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 568816000859 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 568816000860 carboxyltransferase (CT) interaction site; other site 568816000861 biotinylation site [posttranslational modification]; other site 568816000862 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 568816000863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816000864 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816000865 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000866 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 568816000867 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 568816000868 Maf-like protein; Region: Maf; pfam02545 568816000869 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 568816000870 active site 568816000871 dimer interface [polypeptide binding]; other site 568816000872 hypothetical protein; Reviewed; Region: PRK00024 568816000873 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 568816000874 MPN+ (JAMM) motif; other site 568816000875 Zinc-binding site [ion binding]; other site 568816000876 rod shape-determining protein MreB; Provisional; Region: PRK13927 568816000877 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 568816000878 ATP binding site [chemical binding]; other site 568816000879 profilin binding site; other site 568816000880 Protein of unknown function (DUF904); Region: DUF904; cl11531 568816000881 rod shape-determining protein MreC; Region: MreC; pfam04085 568816000882 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 568816000883 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 568816000884 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816000885 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 568816000886 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 568816000887 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 568816000888 FeS/SAM binding site; other site 568816000889 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 568816000890 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 568816000891 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 568816000892 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 568816000893 homodimer interface [polypeptide binding]; other site 568816000894 oligonucleotide binding site [chemical binding]; other site 568816000895 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 568816000896 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 568816000897 active site 568816000898 NTP binding site [chemical binding]; other site 568816000899 metal binding triad [ion binding]; metal-binding site 568816000900 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 568816000901 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 568816000902 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 568816000903 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 568816000904 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 568816000905 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 568816000906 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 568816000907 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 568816000908 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 568816000909 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 568816000910 ATP cone domain; Region: ATP-cone; pfam03477 568816000911 Class III ribonucleotide reductase; Region: RNR_III; cd01675 568816000912 effector binding site; other site 568816000913 active site 568816000914 Zn binding site [ion binding]; other site 568816000915 glycine loop; other site 568816000916 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 568816000917 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 568816000918 FeS/SAM binding site; other site 568816000919 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816000920 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 568816000921 metal binding site [ion binding]; metal-binding site 568816000922 dimer interface [polypeptide binding]; other site 568816000923 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 568816000924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816000925 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 568816000926 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 568816000927 active site 568816000928 catalytic triad [active] 568816000929 oxyanion hole [active] 568816000930 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 568816000931 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 568816000932 4Fe-4S binding domain; Region: Fer4; cl02805 568816000933 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 568816000934 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 568816000935 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 568816000936 Protein of unknown function (DUF441); Region: DUF441; cl01041 568816000937 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 568816000938 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816000939 MatE; Region: MatE; cl10513 568816000940 MatE; Region: MatE; cl10513 568816000941 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 568816000942 metal binding site 2 [ion binding]; metal-binding site 568816000943 putative DNA binding helix; other site 568816000944 metal binding site 1 [ion binding]; metal-binding site 568816000945 dimer interface [polypeptide binding]; other site 568816000946 structural Zn2+ binding site [ion binding]; other site 568816000947 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816000948 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 568816000949 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 568816000950 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 568816000951 protein binding site [polypeptide binding]; other site 568816000952 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 568816000953 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 568816000954 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 568816000955 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 568816000956 Uncharacterized conserved protein [Function unknown]; Region: COG2006 568816000957 4Fe-4S binding domain; Region: Fer4; cl02805 568816000958 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 568816000959 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 568816000960 putative active site [active] 568816000961 (T/H)XGH motif; other site 568816000962 putative transposase OrfB; Reviewed; Region: PHA02517 568816000963 HTH-like domain; Region: HTH_21; pfam13276 568816000964 Integrase core domain; Region: rve; cl01316 568816000965 Integrase core domain; Region: rve_3; cl15866 568816000966 S-adenosylmethionine synthetase; Validated; Region: PRK05250 568816000967 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 568816000968 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 568816000969 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 568816000970 primosome assembly protein PriA; Validated; Region: PRK05580 568816000971 primosome assembly protein PriA; Validated; Region: PRK05580 568816000972 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 568816000973 ATP binding site [chemical binding]; other site 568816000974 putative Mg++ binding site [ion binding]; other site 568816000975 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 568816000976 nucleotide binding region [chemical binding]; other site 568816000977 ATP-binding site [chemical binding]; other site 568816000978 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 568816000979 active site 568816000980 catalytic residues [active] 568816000981 metal binding site [ion binding]; metal-binding site 568816000982 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 568816000983 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 568816000984 putative active site [active] 568816000985 substrate binding site [chemical binding]; other site 568816000986 putative cosubstrate binding site; other site 568816000987 catalytic site [active] 568816000988 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 568816000989 substrate binding site [chemical binding]; other site 568816000990 Protein of unknown function DUF116; Region: DUF116; cl00800 568816000991 16S rRNA methyltransferase B; Provisional; Region: PRK14902 568816000992 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 568816000993 putative RNA binding site [nucleotide binding]; other site 568816000994 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 568816000995 S-adenosylmethionine binding site [chemical binding]; other site 568816000996 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 568816000997 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 568816000998 active site 568816000999 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 568816001000 Catalytic domain of Protein Kinases; Region: PKc; cd00180 568816001001 active site 568816001002 ATP binding site [chemical binding]; other site 568816001003 substrate binding site [chemical binding]; other site 568816001004 activation loop (A-loop); other site 568816001005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 568816001006 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 568816001007 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 568816001008 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 568816001009 GTPase RsgA; Reviewed; Region: PRK00098 568816001010 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 568816001011 RNA binding site [nucleotide binding]; other site 568816001012 homodimer interface [polypeptide binding]; other site 568816001013 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 568816001014 GTPase/Zn-binding domain interface [polypeptide binding]; other site 568816001015 GTP/Mg2+ binding site [chemical binding]; other site 568816001016 G4 box; other site 568816001017 G5 box; other site 568816001018 G1 box; other site 568816001019 Switch I region; other site 568816001020 G2 box; other site 568816001021 G3 box; other site 568816001022 Switch II region; other site 568816001023 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 568816001024 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 568816001025 substrate binding site [chemical binding]; other site 568816001026 hexamer interface [polypeptide binding]; other site 568816001027 metal binding site [ion binding]; metal-binding site 568816001028 AsmA-like C-terminal region; Region: AsmA_2; cl15864 568816001029 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 568816001030 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 568816001031 catalytic motif [active] 568816001032 Zn binding site [ion binding]; other site 568816001033 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; cl00161 568816001034 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 568816001035 Lumazine binding domain; Region: Lum_binding; pfam00677 568816001036 Lumazine binding domain; Region: Lum_binding; pfam00677 568816001037 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 568816001038 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 568816001039 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 568816001040 dimerization interface [polypeptide binding]; other site 568816001041 active site 568816001042 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 568816001043 homopentamer interface [polypeptide binding]; other site 568816001044 active site 568816001045 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 568816001046 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 568816001047 dimerization interface [polypeptide binding]; other site 568816001048 domain crossover interface; other site 568816001049 redox-dependent activation switch; other site 568816001050 recombinase A; Provisional; Region: recA; PRK09354 568816001051 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 568816001052 hexamer interface [polypeptide binding]; other site 568816001053 Walker A motif; other site 568816001054 ATP binding site [chemical binding]; other site 568816001055 Walker B motif; other site 568816001056 RecX family; Region: RecX; cl00936 568816001057 phosphodiesterase; Provisional; Region: PRK12704 568816001058 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816001059 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816001060 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816001061 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 568816001062 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 568816001063 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 568816001064 Sulfatase; Region: Sulfatase; cl10460 568816001065 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 568816001066 hybrid cluster protein; Provisional; Region: PRK05290 568816001067 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 568816001068 ACS interaction site; other site 568816001069 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 568816001070 hybrid metal cluster; other site 568816001071 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 568816001072 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 568816001073 FeS assembly ATPase SufC; Region: sufC; TIGR01978 568816001074 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 568816001075 Walker A/P-loop; other site 568816001076 ATP binding site [chemical binding]; other site 568816001077 Q-loop/lid; other site 568816001078 ABC transporter signature motif; other site 568816001079 Walker B; other site 568816001080 D-loop; other site 568816001081 H-loop/switch region; other site 568816001082 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 568816001083 FeS assembly protein SufB; Region: sufB; TIGR01980 568816001084 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 568816001085 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 568816001086 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 568816001087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816001088 catalytic residue [active] 568816001089 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 568816001090 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 568816001091 trimerization site [polypeptide binding]; other site 568816001092 active site 568816001093 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 568816001094 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 568816001095 RNase E interface [polypeptide binding]; other site 568816001096 trimer interface [polypeptide binding]; other site 568816001097 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 568816001098 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 568816001099 RNase E interface [polypeptide binding]; other site 568816001100 trimer interface [polypeptide binding]; other site 568816001101 active site 568816001102 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 568816001103 putative nucleic acid binding region [nucleotide binding]; other site 568816001104 G-X-X-G motif; other site 568816001105 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 568816001106 RNA binding site [nucleotide binding]; other site 568816001107 domain interface; other site 568816001108 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 568816001109 HPr interaction site; other site 568816001110 glycerol kinase (GK) interaction site [polypeptide binding]; other site 568816001111 active site 568816001112 phosphorylation site [posttranslational modification] 568816001113 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 568816001114 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 568816001115 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 568816001116 Y-family of DNA polymerases; Region: PolY; cl12025 568816001117 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 568816001118 DNA binding site [nucleotide binding] 568816001119 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 568816001120 generic binding surface I; other site 568816001121 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 568816001122 ATP binding site [chemical binding]; other site 568816001123 putative Mg++ binding site [ion binding]; other site 568816001124 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 568816001125 nucleotide binding region [chemical binding]; other site 568816001126 ATP-binding site [chemical binding]; other site 568816001127 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 568816001128 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 568816001129 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 568816001130 elongation factor G; Reviewed; Region: PRK12740 568816001131 G1 box; other site 568816001132 putative GEF interaction site [polypeptide binding]; other site 568816001133 GTP/Mg2+ binding site [chemical binding]; other site 568816001134 Switch I region; other site 568816001135 G2 box; other site 568816001136 G3 box; other site 568816001137 Switch II region; other site 568816001138 G4 box; other site 568816001139 G5 box; other site 568816001140 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 568816001141 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 568816001142 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 568816001143 transketolase; Reviewed; Region: PRK05899 568816001144 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 568816001145 TPP-binding site [chemical binding]; other site 568816001146 dimer interface [polypeptide binding]; other site 568816001147 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 568816001148 PYR/PP interface [polypeptide binding]; other site 568816001149 dimer interface [polypeptide binding]; other site 568816001150 TPP binding site [chemical binding]; other site 568816001151 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816001152 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 568816001153 dimer interface [polypeptide binding]; other site 568816001154 substrate binding site [chemical binding]; other site 568816001155 ATP binding site [chemical binding]; other site 568816001156 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 568816001157 substrate binding site [chemical binding]; other site 568816001158 multimerization interface [polypeptide binding]; other site 568816001159 ATP binding site [chemical binding]; other site 568816001160 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 568816001161 thiamine phosphate binding site [chemical binding]; other site 568816001162 active site 568816001163 pyrophosphate binding site [ion binding]; other site 568816001164 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816001165 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 568816001166 signal recognition particle protein; Provisional; Region: PRK10867 568816001167 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 568816001168 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 568816001169 P loop; other site 568816001170 GTP binding site [chemical binding]; other site 568816001171 Signal peptide binding domain; Region: SRP_SPB; pfam02978 568816001172 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 568816001173 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 568816001174 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 568816001175 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 568816001176 RimM N-terminal domain; Region: RimM; pfam01782 568816001177 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 568816001178 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 568816001179 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 568816001180 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 568816001181 Catalytic site [active] 568816001182 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 568816001183 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 568816001184 GTP/Mg2+ binding site [chemical binding]; other site 568816001185 G4 box; other site 568816001186 G5 box; other site 568816001187 G1 box; other site 568816001188 Switch I region; other site 568816001189 G2 box; other site 568816001190 G3 box; other site 568816001191 Switch II region; other site 568816001192 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 568816001193 RNA/DNA hybrid binding site [nucleotide binding]; other site 568816001194 active site 568816001195 Restriction endonuclease; Region: Mrr_cat; cl00516 568816001196 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 568816001197 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 568816001198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001199 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 568816001200 Pilus assembly protein, PilO; Region: PilO; cl01234 568816001201 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 568816001202 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 568816001203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816001204 homodimer interface [polypeptide binding]; other site 568816001205 catalytic residue [active] 568816001206 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 568816001207 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 568816001208 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 568816001209 active site 568816001210 aspartate aminotransferase; Provisional; Region: PRK07568 568816001211 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 568816001212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816001213 homodimer interface [polypeptide binding]; other site 568816001214 catalytic residue [active] 568816001215 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 568816001216 DEAD-like helicases superfamily; Region: DEXDc; smart00487 568816001217 ATP binding site [chemical binding]; other site 568816001218 Mg++ binding site [ion binding]; other site 568816001219 motif III; other site 568816001220 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 568816001221 nucleotide binding region [chemical binding]; other site 568816001222 ATP-binding site [chemical binding]; other site 568816001223 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 568816001224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816001225 active site 568816001226 HIGH motif; other site 568816001227 nucleotide binding site [chemical binding]; other site 568816001228 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568816001229 active site 568816001230 KMSKS motif; other site 568816001231 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 568816001232 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 568816001233 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 568816001234 23S rRNA interface [nucleotide binding]; other site 568816001235 L3 interface [polypeptide binding]; other site 568816001236 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 568816001237 SprT-like family; Region: SprT-like; pfam10263 568816001238 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 568816001239 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 568816001240 Walker A/P-loop; other site 568816001241 ATP binding site [chemical binding]; other site 568816001242 Q-loop/lid; other site 568816001243 ABC transporter signature motif; other site 568816001244 Walker B; other site 568816001245 D-loop; other site 568816001246 H-loop/switch region; other site 568816001247 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 568816001248 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 568816001249 Walker A/P-loop; other site 568816001250 ATP binding site [chemical binding]; other site 568816001251 Q-loop/lid; other site 568816001252 ABC transporter signature motif; other site 568816001253 Walker B; other site 568816001254 D-loop; other site 568816001255 H-loop/switch region; other site 568816001256 Cobalt transport protein; Region: CbiQ; cl00463 568816001257 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 568816001258 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 568816001259 dimerization interface 3.5A [polypeptide binding]; other site 568816001260 active site 568816001261 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 568816001262 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 568816001263 N-terminal plug; other site 568816001264 ligand-binding site [chemical binding]; other site 568816001265 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 568816001266 intersubunit interface [polypeptide binding]; other site 568816001267 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 568816001268 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 568816001269 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 568816001270 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 568816001271 Gram-negative bacterial tonB protein; Region: TonB; cl10048 568816001272 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 568816001273 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 568816001274 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 568816001275 active site 568816001276 catalytic site [active] 568816001277 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 568816001278 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 568816001279 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 568816001280 dimer interface [polypeptide binding]; other site 568816001281 active site 568816001282 acyl-CoA synthetase; Validated; Region: PRK07638 568816001283 AMP-binding enzyme; Region: AMP-binding; cl15778 568816001284 Family of unknown function (DUF500); Region: DUF500; cl01109 568816001285 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 568816001286 homodimer interaction site [polypeptide binding]; other site 568816001287 cofactor binding site; other site 568816001288 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 568816001289 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 568816001290 active site flap/lid [active] 568816001291 nucleophilic elbow; other site 568816001292 catalytic triad [active] 568816001293 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 568816001294 Domain of unknown function (DUF386); Region: DUF386; cl01047 568816001295 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001296 Zn2+ binding site [ion binding]; other site 568816001297 Mg2+ binding site [ion binding]; other site 568816001298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816001299 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816001301 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816001302 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001303 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 568816001304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001305 Helix-turn-helix domains; Region: HTH; cl00088 568816001306 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816001307 dimerization interface [polypeptide binding]; other site 568816001308 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 568816001309 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 568816001310 Ligand Binding Site [chemical binding]; other site 568816001311 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 568816001312 active site 568816001313 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 568816001314 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 568816001315 FeS/SAM binding site; other site 568816001316 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816001317 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 568816001318 active site 568816001319 Protein of unknown function (DUF819); Region: DUF819; cl02317 568816001320 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816001321 glutamine synthetase, type I; Region: GlnA; TIGR00653 568816001322 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 568816001323 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 568816001324 3D domain; Region: 3D; cl01439 568816001325 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 568816001326 CoenzymeA binding site [chemical binding]; other site 568816001327 subunit interaction site [polypeptide binding]; other site 568816001328 PHB binding site; other site 568816001329 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568816001330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568816001331 active site 568816001332 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816001333 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 568816001334 active site 568816001335 substrate-binding site [chemical binding]; other site 568816001336 metal-binding site [ion binding] 568816001337 ATP binding site [chemical binding]; other site 568816001338 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 568816001339 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 568816001340 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 568816001341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816001342 Coenzyme A binding pocket [chemical binding]; other site 568816001343 UGMP family protein; Validated; Region: PRK09604 568816001344 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 568816001345 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816001346 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001347 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001348 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 568816001349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001350 Bacterial sugar transferase; Region: Bac_transf; cl00939 568816001351 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 568816001352 active site 568816001353 tetramer interface; other site 568816001354 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 568816001355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001356 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568816001357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001358 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816001359 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816001360 dimer interface [polypeptide binding]; other site 568816001361 active site 568816001362 metal binding site [ion binding]; metal-binding site 568816001363 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 568816001364 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816001365 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816001366 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568816001367 active site 568816001368 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 568816001369 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 568816001370 Rubredoxin; Region: Rubredoxin; pfam00301 568816001371 iron binding site [ion binding]; other site 568816001372 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 568816001373 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 568816001374 G1 box; other site 568816001375 GTP/Mg2+ binding site [chemical binding]; other site 568816001376 Switch I region; other site 568816001377 G2 box; other site 568816001378 G3 box; other site 568816001379 Switch II region; other site 568816001380 G4 box; other site 568816001381 G5 box; other site 568816001382 Nucleoside recognition; Region: Gate; cl00486 568816001383 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 568816001384 Nucleoside recognition; Region: Gate; cl00486 568816001385 FeoA domain; Region: FeoA; cl00838 568816001386 FeoA domain; Region: FeoA; cl00838 568816001387 Domain of unknown function (DUF368); Region: DUF368; cl00893 568816001388 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 568816001389 active site 568816001390 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 568816001391 FMN binding site [chemical binding]; other site 568816001392 dimer interface [polypeptide binding]; other site 568816001393 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 568816001394 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 568816001395 Ligand Binding Site [chemical binding]; other site 568816001396 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 568816001397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001398 Family description; Region: UvrD_C_2; cl15862 568816001399 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 568816001400 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 568816001401 nucleotide binding pocket [chemical binding]; other site 568816001402 K-X-D-G motif; other site 568816001403 catalytic site [active] 568816001404 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 568816001405 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 568816001406 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 568816001407 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 568816001408 Dimer interface [polypeptide binding]; other site 568816001409 BRCT sequence motif; other site 568816001410 Membrane transport protein; Region: Mem_trans; cl09117 568816001411 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 568816001412 active site 568816001413 catalytic site [active] 568816001414 substrate binding site [chemical binding]; other site 568816001415 Carbon starvation protein CstA; Region: CstA; pfam02554 568816001416 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 568816001417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001418 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 568816001419 LDH/MDH dimer interface [polypeptide binding]; other site 568816001420 NAD(P) binding site [chemical binding]; other site 568816001421 substrate binding site [chemical binding]; other site 568816001422 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 568816001423 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 568816001424 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 568816001425 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 568816001426 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 568816001427 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 568816001428 putative substrate translocation pore; other site 568816001429 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 568816001430 active site 568816001431 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 568816001432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001433 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 568816001434 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 568816001435 active site 568816001436 catalytic motif [active] 568816001437 Zn binding site [ion binding]; other site 568816001438 GTPase Era; Reviewed; Region: era; PRK00089 568816001439 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 568816001440 G1 box; other site 568816001441 GTP/Mg2+ binding site [chemical binding]; other site 568816001442 Switch I region; other site 568816001443 G2 box; other site 568816001444 Switch II region; other site 568816001445 G3 box; other site 568816001446 G4 box; other site 568816001447 G5 box; other site 568816001448 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 568816001449 Domain of unknown function DUF21; Region: DUF21; pfam01595 568816001450 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 568816001451 Transporter associated domain; Region: CorC_HlyC; cl08393 568816001452 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 568816001453 Recombination protein O N terminal; Region: RecO_N; cl15812 568816001454 Recombination protein O C terminal; Region: RecO_C; pfam02565 568816001455 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 568816001456 active site 568816001457 putative catalytic site [active] 568816001458 DNA binding site [nucleotide binding] 568816001459 putative phosphate binding site [ion binding]; other site 568816001460 metal binding site A [ion binding]; metal-binding site 568816001461 AP binding site [nucleotide binding]; other site 568816001462 metal binding site B [ion binding]; metal-binding site 568816001463 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 568816001464 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 568816001465 nudix motif; other site 568816001466 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 568816001467 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 568816001468 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816001469 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 568816001470 active site 568816001471 metal binding site [ion binding]; metal-binding site 568816001472 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 568816001473 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 568816001474 HIGH motif; other site 568816001475 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568816001476 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 568816001477 active site 568816001478 KMSKS motif; other site 568816001479 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 568816001480 tRNA binding surface [nucleotide binding]; other site 568816001481 SLBB domain; Region: SLBB; pfam10531 568816001482 comEA protein; Region: comE; TIGR01259 568816001483 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 568816001484 Competence protein; Region: Competence; cl00471 568816001485 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816001486 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 568816001487 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 568816001488 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 568816001489 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 568816001490 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568816001491 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001492 Uncharacterized conserved protein [Function unknown]; Region: COG1284 568816001493 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816001494 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816001495 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 568816001496 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 568816001497 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 568816001498 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 568816001499 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568816001500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816001501 DNA-binding site [nucleotide binding]; DNA binding site 568816001502 FCD domain; Region: FCD; cl11656 568816001503 pur operon repressor; Provisional; Region: PRK09213 568816001504 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 568816001505 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001506 active site 568816001507 threonine dehydratase; Provisional; Region: PRK08198 568816001508 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 568816001509 tetramer interface [polypeptide binding]; other site 568816001510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816001511 catalytic residue [active] 568816001512 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 568816001513 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 568816001514 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 568816001515 Substrate binding site; other site 568816001516 Mg++ binding site; other site 568816001517 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 568816001518 active site 568816001519 substrate binding site [chemical binding]; other site 568816001520 CoA binding site [chemical binding]; other site 568816001521 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 568816001522 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 568816001523 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001524 active site 568816001525 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 568816001526 putative active site [active] 568816001527 catalytic residue [active] 568816001528 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 568816001529 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 568816001530 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 568816001531 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 568816001532 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816001533 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816001534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001535 Helix-turn-helix domains; Region: HTH; cl00088 568816001536 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816001537 dimerization interface [polypeptide binding]; other site 568816001538 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 568816001539 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 568816001540 peptide chain release factor 1; Validated; Region: prfA; PRK00591 568816001541 RF-1 domain; Region: RF-1; cl02875 568816001542 RF-1 domain; Region: RF-1; cl02875 568816001543 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 568816001544 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 568816001545 S-adenosylmethionine binding site [chemical binding]; other site 568816001546 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 568816001547 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 568816001548 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 568816001549 Protein of unknown function (DUF436); Region: DUF436; cl01860 568816001550 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001551 active site 568816001552 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 568816001553 catalytic motif [active] 568816001554 Zn binding site [ion binding]; other site 568816001555 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 568816001556 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 568816001557 tartrate dehydrogenase; Provisional; Region: PRK08194 568816001558 Chorismate mutase type II; Region: CM_2; cl00693 568816001559 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; cl15357 568816001560 transmembrane helices; other site 568816001561 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 568816001562 Ligand Binding Site [chemical binding]; other site 568816001563 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 568816001564 Ligand Binding Site [chemical binding]; other site 568816001565 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 568816001566 Ligand Binding Site [chemical binding]; other site 568816001567 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 568816001568 Ligand Binding Site [chemical binding]; other site 568816001569 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 568816001570 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816001571 active site 568816001572 HIGH motif; other site 568816001573 nucleotide binding site [chemical binding]; other site 568816001574 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568816001575 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 568816001576 active site 568816001577 KMSKS motif; other site 568816001578 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 568816001579 tRNA binding surface [nucleotide binding]; other site 568816001580 anticodon binding site; other site 568816001581 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 568816001582 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 568816001583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816001584 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816001585 O-Antigen ligase; Region: Wzy_C; cl04850 568816001586 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 568816001587 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 568816001588 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; cl09155 568816001589 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 568816001590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001591 Helix-turn-helix domains; Region: HTH; cl00088 568816001592 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816001593 dimerization interface [polypeptide binding]; other site 568816001594 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 568816001595 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 568816001596 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816001597 Citrate transporter; Region: CitMHS; pfam03600 568816001598 Sodium:solute symporter family; Region: SSF; cl00456 568816001599 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 568816001600 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816001601 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816001602 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 568816001603 dimer interface [polypeptide binding]; other site 568816001604 conserved gate region; other site 568816001605 putative PBP binding loops; other site 568816001606 ABC-ATPase subunit interface; other site 568816001607 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 568816001608 dimer interface [polypeptide binding]; other site 568816001609 conserved gate region; other site 568816001610 putative PBP binding loops; other site 568816001611 ABC-ATPase subunit interface; other site 568816001612 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 568816001613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001614 Walker A/P-loop; other site 568816001615 ATP binding site [chemical binding]; other site 568816001616 Q-loop/lid; other site 568816001617 ABC transporter signature motif; other site 568816001618 Walker B; other site 568816001619 D-loop; other site 568816001620 H-loop/switch region; other site 568816001621 TOBE domain; Region: TOBE_2; cl01440 568816001622 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 568816001623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816001624 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 568816001625 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 568816001626 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 568816001627 NAD(P) binding site [chemical binding]; other site 568816001628 Helix-turn-helix domains; Region: HTH; cl00088 568816001629 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 568816001630 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816001631 metal binding site [ion binding]; metal-binding site 568816001632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816001633 Helix-turn-helix domains; Region: HTH; cl00088 568816001634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816001635 Helix-turn-helix domains; Region: HTH; cl00088 568816001636 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816001637 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 568816001638 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816001639 metal binding site [ion binding]; metal-binding site 568816001640 Helix-turn-helix domains; Region: HTH; cl00088 568816001641 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816001642 dimerization interface [polypeptide binding]; other site 568816001643 aconitate hydratase; Validated; Region: PRK07229 568816001644 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816001645 substrate binding site [chemical binding]; other site 568816001646 ligand binding site [chemical binding]; other site 568816001647 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 568816001648 substrate binding site [chemical binding]; other site 568816001649 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 568816001650 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; cd00625 568816001651 transmembrane helices; other site 568816001652 Citrate transporter; Region: CitMHS; pfam03600 568816001653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001654 Helix-turn-helix domains; Region: HTH; cl00088 568816001655 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816001656 dimerization interface [polypeptide binding]; other site 568816001657 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 568816001658 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 568816001659 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816001660 catalytic residue [active] 568816001661 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 568816001662 FMN binding site [chemical binding]; other site 568816001663 dimer interface [polypeptide binding]; other site 568816001664 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816001665 4Fe-4S binding domain; Region: Fer4; cl02805 568816001666 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 568816001667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001668 Helix-turn-helix domains; Region: HTH; cl00088 568816001669 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816001670 dimerization interface [polypeptide binding]; other site 568816001671 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816001672 CrcB-like protein; Region: CRCB; cl09114 568816001673 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816001674 Helix-turn-helix domains; Region: HTH; cl00088 568816001675 Rubrerythrin [Energy production and conversion]; Region: COG1592 568816001676 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 568816001677 diiron binding motif [ion binding]; other site 568816001678 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 568816001679 iron binding site [ion binding]; other site 568816001680 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568816001681 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 568816001682 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816001683 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816001684 peptidase T; Region: peptidase-T; TIGR01882 568816001685 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 568816001686 metal binding site [ion binding]; metal-binding site 568816001687 dimer interface [polypeptide binding]; other site 568816001688 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 568816001689 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 568816001690 teramer interface [polypeptide binding]; other site 568816001691 active site 568816001692 FMN binding site [chemical binding]; other site 568816001693 catalytic residues [active] 568816001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 568816001695 Nucleoside recognition; Region: Gate; cl00486 568816001696 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568816001697 Helix-turn-helix domains; Region: HTH; cl00088 568816001698 Bacterial transcriptional regulator; Region: IclR; pfam01614 568816001699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 568816001700 Nucleoside recognition; Region: Gate; cl00486 568816001701 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 568816001702 4Fe-4S binding domain; Region: Fer4; cl02805 568816001703 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 568816001704 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 568816001705 dimer interface [polypeptide binding]; other site 568816001706 PYR/PP interface [polypeptide binding]; other site 568816001707 TPP binding site [chemical binding]; other site 568816001708 substrate binding site [chemical binding]; other site 568816001709 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816001710 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 568816001711 TPP-binding site [chemical binding]; other site 568816001712 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 568816001713 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568816001714 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568816001715 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568816001716 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 568816001717 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 568816001718 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 568816001719 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 568816001720 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 568816001721 Walker A/P-loop; other site 568816001722 ATP binding site [chemical binding]; other site 568816001723 Q-loop/lid; other site 568816001724 ABC transporter signature motif; other site 568816001725 Walker B; other site 568816001726 D-loop; other site 568816001727 H-loop/switch region; other site 568816001728 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 568816001729 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 568816001730 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 568816001731 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 568816001732 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 568816001733 Ligand binding site; other site 568816001734 oligomer interface; other site 568816001735 NeuB family; Region: NeuB; cl00496 568816001736 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 568816001737 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 568816001738 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 568816001739 putative active site [active] 568816001740 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 568816001741 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 568816001742 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 568816001743 active site 568816001744 motif I; other site 568816001745 motif II; other site 568816001746 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 568816001747 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 568816001748 putative acyl-acceptor binding pocket; other site 568816001749 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 568816001750 OstA-like protein; Region: OstA; cl00844 568816001751 OstA-like protein; Region: OstA; cl00844 568816001752 OstA-like protein; Region: OstA; cl00844 568816001753 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 568816001754 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 568816001755 Walker A/P-loop; other site 568816001756 ATP binding site [chemical binding]; other site 568816001757 Q-loop/lid; other site 568816001758 ABC transporter signature motif; other site 568816001759 Walker B; other site 568816001760 D-loop; other site 568816001761 H-loop/switch region; other site 568816001762 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 568816001763 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 568816001764 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 568816001765 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 568816001766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001767 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 568816001768 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 568816001769 DHH family; Region: DHH; pfam01368 568816001770 DHHA1 domain; Region: DHHA1; pfam02272 568816001771 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 568816001772 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816001773 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 568816001774 synthetase active site [active] 568816001775 NTP binding site [chemical binding]; other site 568816001776 metal binding site [ion binding]; metal-binding site 568816001777 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 568816001778 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 568816001779 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 568816001780 dimerization interface [polypeptide binding]; other site 568816001781 putative tRNAtyr binding site [nucleotide binding]; other site 568816001782 putative active site [active] 568816001783 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816001784 Domain of unknown function DUF20; Region: UPF0118; pfam01594 568816001785 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 568816001786 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 568816001787 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 ATP-dependent...; Region: HisRS-like_core; cd00773 568816001788 dimer interface [polypeptide binding]; other site 568816001789 motif 1; other site 568816001790 active site 568816001791 motif 2; other site 568816001792 motif 3; other site 568816001793 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 568816001794 anticodon binding site; other site 568816001795 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 568816001796 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 568816001797 dimer interface [polypeptide binding]; other site 568816001798 anticodon binding site; other site 568816001799 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 568816001800 homodimer interface [polypeptide binding]; other site 568816001801 motif 1; other site 568816001802 active site 568816001803 motif 2; other site 568816001804 GAD domain; Region: GAD; pfam02938 568816001805 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 568816001806 motif 3; other site 568816001807 lipoprotein signal peptidase; Provisional; Region: PRK14787 568816001808 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 568816001809 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 568816001810 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 568816001811 RNA binding surface [nucleotide binding]; other site 568816001812 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 568816001813 active site 568816001814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001815 active site 568816001816 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 568816001817 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 568816001818 Walker A/P-loop; other site 568816001819 ATP binding site [chemical binding]; other site 568816001820 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 568816001821 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 568816001822 Q-loop/lid; other site 568816001823 ABC transporter signature motif; other site 568816001824 Walker B; other site 568816001825 D-loop; other site 568816001826 H-loop/switch region; other site 568816001827 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 568816001828 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 568816001829 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 568816001830 GTP binding site [chemical binding]; other site 568816001831 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 568816001832 catalytic residues [active] 568816001833 Predicted transcriptional regulator [Transcription]; Region: COG1959 568816001834 Helix-turn-helix domains; Region: HTH; cl00088 568816001835 Protein of unknown function (DUF541); Region: SIMPL; cl01077 568816001836 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 568816001837 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568816001838 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816001839 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816001840 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568816001841 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816001842 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 568816001843 putative FMN binding site [chemical binding]; other site 568816001844 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816001845 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816001846 Predicted ATPase [General function prediction only]; Region: COG5293 568816001847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816001848 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_c; cd10311 568816001849 putative active site [active] 568816001850 catalytic site [active] 568816001851 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816001852 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 568816001853 ATP binding site [chemical binding]; other site 568816001854 putative Mg++ binding site [ion binding]; other site 568816001855 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 568816001856 nucleotide binding region [chemical binding]; other site 568816001857 ATP-binding site [chemical binding]; other site 568816001858 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 568816001859 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 568816001860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001862 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 568816001863 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 568816001864 Restriction endonuclease [Defense mechanisms]; Region: COG3587 568816001865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001866 Low molecular weight phosphatase family; Region: LMWPc; cd00115 568816001867 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 568816001868 active site 568816001869 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001870 Zn2+ binding site [ion binding]; other site 568816001871 Mg2+ binding site [ion binding]; other site 568816001872 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001873 Zn2+ binding site [ion binding]; other site 568816001874 Mg2+ binding site [ion binding]; other site 568816001875 Predicted acetyltransferase [General function prediction only]; Region: COG3153 568816001876 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816001877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001878 Walker A/P-loop; other site 568816001879 ATP binding site [chemical binding]; other site 568816001880 Q-loop/lid; other site 568816001881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001882 ABC transporter signature motif; other site 568816001883 Walker B; other site 568816001884 D-loop; other site 568816001885 H-loop/switch region; other site 568816001886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816001887 AAA domain; Region: AAA_21; pfam13304 568816001888 Walker A/P-loop; other site 568816001889 ATP binding site [chemical binding]; other site 568816001890 Q-loop/lid; other site 568816001891 ABC transporter signature motif; other site 568816001892 Walker B; other site 568816001893 D-loop; other site 568816001894 H-loop/switch region; other site 568816001895 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 568816001896 dimerization interface [polypeptide binding]; other site 568816001897 putative DNA binding site [nucleotide binding]; other site 568816001898 putative Zn2+ binding site [ion binding]; other site 568816001899 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816001900 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 568816001901 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 568816001902 G1 box; other site 568816001903 putative GEF interaction site [polypeptide binding]; other site 568816001904 GTP/Mg2+ binding site [chemical binding]; other site 568816001905 Switch I region; other site 568816001906 G2 box; other site 568816001907 G3 box; other site 568816001908 Switch II region; other site 568816001909 G4 box; other site 568816001910 G5 box; other site 568816001911 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 568816001912 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 568816001913 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 568816001914 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 568816001915 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 568816001916 S-adenosylmethionine binding site [chemical binding]; other site 568816001917 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 568816001918 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 568816001919 DNA binding residues [nucleotide binding] 568816001920 Helix-turn-helix domain; Region: HTH_16; pfam12645 568816001921 type IV secretion system T-DNA border endonuclease VirD1; Provisional; Region: PRK13858 568816001922 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 568816001923 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 568816001924 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 568816001925 hypothetical protein; Validated; Region: PRK08116 568816001926 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 568816001927 Walker A motif; other site 568816001928 ATP binding site [chemical binding]; other site 568816001929 Walker B motif; other site 568816001930 arginine finger; other site 568816001931 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 568816001932 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; cl02788 568816001933 catalytic residues [active] 568816001934 Recombinase; Region: Recombinase; pfam07508 568816001935 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816001936 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 568816001937 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; cl11420 568816001938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568816001939 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 568816001940 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 568816001941 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816001942 Coenzyme A binding pocket [chemical binding]; other site 568816001943 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816001944 Helix-turn-helix domains; Region: HTH; cl00088 568816001945 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 568816001946 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 568816001947 ATP binding site [chemical binding]; other site 568816001948 active site 568816001949 substrate binding site [chemical binding]; other site 568816001950 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 568816001951 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 568816001952 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 568816001953 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816001954 minor groove reading motif; other site 568816001955 helix-hairpin-helix signature motif; other site 568816001956 substrate binding pocket [chemical binding]; other site 568816001957 active site 568816001958 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 568816001959 Cupin domain; Region: Cupin_2; cl09118 568816001960 Helix-turn-helix domain; Region: HTH_18; pfam12833 568816001961 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816001962 allantoate amidohydrolase; Reviewed; Region: PRK12890 568816001963 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 568816001964 active site 568816001965 metal binding site [ion binding]; metal-binding site 568816001966 dimer interface [polypeptide binding]; other site 568816001967 Cupin domain; Region: Cupin_2; cl09118 568816001968 Helix-turn-helix domain; Region: HTH_18; pfam12833 568816001969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816001970 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 568816001971 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 568816001972 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816001973 catalytic residue [active] 568816001974 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816001975 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816001976 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816001977 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 568816001978 metal binding site [ion binding]; metal-binding site 568816001979 putative dimer interface [polypeptide binding]; other site 568816001980 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 568816001981 homotrimer interaction site [polypeptide binding]; other site 568816001982 putative active site [active] 568816001983 putative acyltransferase; Provisional; Region: PRK05790 568816001984 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 568816001985 dimer interface [polypeptide binding]; other site 568816001986 active site 568816001987 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568816001988 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 568816001989 FAD binding site [chemical binding]; other site 568816001990 homotetramer interface [polypeptide binding]; other site 568816001991 substrate binding pocket [chemical binding]; other site 568816001992 catalytic base [active] 568816001993 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 568816001994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816001995 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568816001996 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 568816001997 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 568816001998 substrate binding site [chemical binding]; other site 568816001999 oxyanion hole (OAH) forming residues; other site 568816002000 trimer interface [polypeptide binding]; other site 568816002001 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 568816002002 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 568816002003 oligomer interface [polypeptide binding]; other site 568816002004 putative active site [active] 568816002005 metal binding site [ion binding]; metal-binding site 568816002006 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 568816002007 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568816002008 NAD(P) binding site [chemical binding]; other site 568816002009 catalytic residues [active] 568816002010 Uncharacterized conserved protein [Function unknown]; Region: COG1739 568816002011 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 568816002012 Bacterial SH3 domain; Region: SH3_3; cl02551 568816002013 Bacterial SH3 domain; Region: SH3_3; cl02551 568816002014 Protein of unknown function (DUF535); Region: DUF535; cl01128 568816002015 S-layer homology domain; Region: SLH; pfam00395 568816002016 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; cl00284 568816002017 S-layer homology domain; Region: SLH; pfam00395 568816002018 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; cl00284 568816002019 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 568816002020 NlpC/P60 family; Region: NLPC_P60; cl11438 568816002021 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816002022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 568816002023 YheO-like PAS domain; Region: PAS_6; pfam08348 568816002024 Helix-turn-helix domains; Region: HTH; cl00088 568816002025 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 568816002026 Ferritin-like domain; Region: Ferritin; pfam00210 568816002027 ferroxidase diiron center [ion binding]; other site 568816002028 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 568816002029 FeS/SAM binding site; other site 568816002030 Radical SAM superfamily; Region: Radical_SAM; pfam04055 568816002031 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 568816002032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002033 Walker A/P-loop; other site 568816002034 ATP binding site [chemical binding]; other site 568816002035 Q-loop/lid; other site 568816002036 ABC transporter signature motif; other site 568816002037 Walker B; other site 568816002038 D-loop; other site 568816002039 H-loop/switch region; other site 568816002040 ABC transporter; Region: ABC_tran_2; pfam12848 568816002041 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 568816002042 ferredoxin; Validated; Region: PRK07118 568816002043 4Fe-4S binding domain; Region: Fer4; cl02805 568816002044 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816002045 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 568816002046 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 568816002047 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 568816002048 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 568816002049 dimer interface [polypeptide binding]; other site 568816002050 pyridoxal binding site [chemical binding]; other site 568816002051 ATP binding site [chemical binding]; other site 568816002052 potential protein location (hypothetical protein Acin_0748 [Acidaminococcus intestini RyC-MR95]) that overlaps RNA (tRNA-L) 568816002053 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 568816002054 Rubrerythrin [Energy production and conversion]; Region: COG1592 568816002055 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 568816002056 binuclear metal center [ion binding]; other site 568816002057 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 568816002058 iron binding site [ion binding]; other site 568816002059 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 568816002060 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816002061 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816002062 QueT transporter; Region: QueT; cl01932 568816002063 NAD synthetase; Provisional; Region: PRK13981 568816002064 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 568816002065 multimer interface [polypeptide binding]; other site 568816002066 active site 568816002067 catalytic triad [active] 568816002068 protein interface 1 [polypeptide binding]; other site 568816002069 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 568816002070 Ligand Binding Site [chemical binding]; other site 568816002071 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, cyanobacteria; Region: Thr-synth_2; cd01560 568816002072 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 568816002073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816002074 catalytic residue [active] 568816002075 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 568816002076 4Fe-4S binding domain; Region: Fer4; cl02805 568816002077 4Fe-4S binding domain; Region: Fer4; cl02805 568816002078 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816002079 Transcriptional regulator; Region: Transcrip_reg; cl00361 568816002080 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 568816002081 active site 568816002082 putative DNA-binding cleft [nucleotide binding]; other site 568816002083 dimer interface [polypeptide binding]; other site 568816002084 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 568816002085 RuvA N terminal domain; Region: RuvA_N; pfam01330 568816002086 Y-family of DNA polymerases; Region: PolY; cl12025 568816002087 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 568816002088 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 568816002089 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 568816002090 Walker A motif; other site 568816002091 ATP binding site [chemical binding]; other site 568816002092 Walker B motif; other site 568816002093 arginine finger; other site 568816002094 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 568816002095 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 568816002096 Stage II sporulation protein; Region: SpoIID; pfam08486 568816002097 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 568816002098 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 568816002099 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 568816002100 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 568816002101 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 568816002102 Preprotein translocase subunit; Region: YajC; cl00806 568816002103 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 568816002104 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 568816002105 Protein export membrane protein; Region: SecD_SecF; cl14618 568816002106 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 568816002107 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 568816002108 Protein export membrane protein; Region: SecD_SecF; cl14618 568816002109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002110 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002111 recombination factor protein RarA; Reviewed; Region: PRK13342 568816002112 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 568816002113 Walker A motif; other site 568816002114 ATP binding site [chemical binding]; other site 568816002115 Walker B motif; other site 568816002116 arginine finger; other site 568816002117 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 568816002118 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 568816002119 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 568816002120 putative carbohydrate kinase; Provisional; Region: PRK10565 568816002121 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 568816002122 putative substrate binding site [chemical binding]; other site 568816002123 putative ATP binding site [chemical binding]; other site 568816002124 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 568816002125 active site 568816002126 metal binding site [ion binding]; metal-binding site 568816002127 Sporulation and spore germination; Region: Germane; cl11253 568816002128 Sodium:solute symporter family; Region: SSF; cl00456 568816002129 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 568816002130 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 568816002131 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 568816002132 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 568816002133 active site 568816002134 HIGH motif; other site 568816002135 KMSK motif region; other site 568816002136 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 568816002137 tRNA binding surface [nucleotide binding]; other site 568816002138 anticodon binding site; other site 568816002139 CTP synthetase; Validated; Region: pyrG; PRK05380 568816002140 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 568816002141 Catalytic site [active] 568816002142 active site 568816002143 UTP binding site [chemical binding]; other site 568816002144 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 568816002145 active site 568816002146 putative oxyanion hole; other site 568816002147 catalytic triad [active] 568816002148 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 568816002149 putative active site [active] 568816002150 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 568816002151 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 568816002152 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 568816002153 ATP binding site [chemical binding]; other site 568816002154 putative Mg++ binding site [ion binding]; other site 568816002155 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 568816002156 nucleotide binding region [chemical binding]; other site 568816002157 ATP-binding site [chemical binding]; other site 568816002158 TRCF domain; Region: TRCF; cl04088 568816002159 MatE; Region: MatE; cl10513 568816002160 MatE; Region: MatE; cl10513 568816002161 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 568816002162 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 568816002163 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 568816002164 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 568816002165 IHF - DNA interface [nucleotide binding]; other site 568816002166 IHF dimer interface [polypeptide binding]; other site 568816002167 Septum formation initiator; Region: DivIC; cl11433 568816002168 hypothetical protein; Provisional; Region: PRK08582 568816002169 S1_RPS1_repeat_hs4: 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 568816002170 RNA binding site [nucleotide binding]; other site 568816002171 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 568816002172 Ligand Binding Site [chemical binding]; other site 568816002173 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816002174 active site 568816002175 FtsH Extracellular; Region: FtsH_ext; pfam06480 568816002176 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 568816002177 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 568816002178 Walker A motif; other site 568816002179 ATP binding site [chemical binding]; other site 568816002180 Walker B motif; other site 568816002181 arginine finger; other site 568816002182 Peptidase family M41; Region: Peptidase_M41; pfam01434 568816002183 Helix-turn-helix domains; Region: HTH; cl00088 568816002184 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 568816002185 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 568816002186 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 568816002187 Type III pantothenate kinase; Region: Pan_kinase; cl09130 568816002188 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 568816002189 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 568816002190 FMN binding site [chemical binding]; other site 568816002191 active site 568816002192 catalytic residues [active] 568816002193 substrate binding site [chemical binding]; other site 568816002194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002195 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816002196 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002197 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 568816002198 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 568816002199 metal-binding site [ion binding] 568816002200 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 568816002201 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816002202 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 568816002203 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 568816002204 metal-binding site [ion binding] 568816002205 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 568816002206 metal-binding site [ion binding] 568816002207 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 568816002208 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 568816002209 N-terminal plug; other site 568816002210 ligand-binding site [chemical binding]; other site 568816002211 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 568816002212 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 568816002213 intersubunit interface [polypeptide binding]; other site 568816002214 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 568816002215 ABC-ATPase subunit interface; other site 568816002216 dimer interface [polypeptide binding]; other site 568816002217 putative PBP binding regions; other site 568816002218 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 568816002219 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 568816002220 Walker A/P-loop; other site 568816002221 ATP binding site [chemical binding]; other site 568816002222 Q-loop/lid; other site 568816002223 ABC transporter signature motif; other site 568816002224 Walker B; other site 568816002225 D-loop; other site 568816002226 H-loop/switch region; other site 568816002227 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 568816002228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002229 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002231 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 568816002232 Walker A/P-loop; other site 568816002233 ATP binding site [chemical binding]; other site 568816002234 Q-loop/lid; other site 568816002235 ABC transporter signature motif; other site 568816002236 Walker B; other site 568816002237 D-loop; other site 568816002238 H-loop/switch region; other site 568816002239 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 568816002240 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 568816002241 Gram-negative bacterial tonB protein; Region: TonB; cl10048 568816002242 Protein of unknown function, DUF399; Region: DUF399; cl01139 568816002243 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; cl00284 568816002244 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 568816002245 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 568816002246 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816002247 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 568816002248 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 568816002249 FeS/SAM binding site; other site 568816002250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568816002251 metal binding site [ion binding]; metal-binding site 568816002252 active site 568816002253 I-site; other site 568816002254 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 568816002255 PAS domain S-box; Region: sensory_box; TIGR00229 568816002256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568816002257 metal binding site [ion binding]; metal-binding site 568816002258 active site 568816002259 I-site; other site 568816002260 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 568816002261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002262 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568816002263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002264 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 568816002265 NodB motif; other site 568816002266 catalytic site [active] 568816002267 active site 568816002268 metal binding site [ion binding]; metal-binding site 568816002269 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 568816002270 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 568816002271 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 568816002272 DXD motif; other site 568816002273 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 568816002274 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 568816002275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002276 Walker A motif; other site 568816002277 ATP binding site [chemical binding]; other site 568816002278 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 568816002279 active site 568816002280 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 568816002281 NodB motif; other site 568816002282 active site 568816002283 catalytic site [active] 568816002284 metal binding site [ion binding]; metal-binding site 568816002285 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 568816002286 NodB motif; other site 568816002287 active site 568816002288 catalytic site [active] 568816002289 metal binding site [ion binding]; metal-binding site 568816002290 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 568816002291 putative active site [active] 568816002292 metal binding site [ion binding]; metal-binding site 568816002293 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 568816002294 dimerization interface [polypeptide binding]; other site 568816002295 putative DNA binding site [nucleotide binding]; other site 568816002296 putative Zn2+ binding site [ion binding]; other site 568816002297 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 568816002298 active site 568816002299 substrate binding site [chemical binding]; other site 568816002300 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 568816002301 FMN binding site [chemical binding]; other site 568816002302 putative catalytic residues [active] 568816002303 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 568816002304 Cation transport protein; Region: TrkH; cl10514 568816002305 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 568816002306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002307 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; cl15357 568816002308 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 568816002309 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 568816002310 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 568816002311 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 568816002312 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816002313 active site 568816002314 HIGH motif; other site 568816002315 nucleotide binding site [chemical binding]; other site 568816002316 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 568816002317 active site 568816002318 KMSKS motif; other site 568816002319 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 568816002320 tRNA binding surface [nucleotide binding]; other site 568816002321 anticodon binding site; other site 568816002322 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 568816002323 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 568816002324 putative homodimer interface [polypeptide binding]; other site 568816002325 putative homotetramer interface [polypeptide binding]; other site 568816002326 putative allosteric switch controlling residues; other site 568816002327 putative metal binding site [ion binding]; other site 568816002328 putative homodimer-homodimer interface [polypeptide binding]; other site 568816002329 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 568816002330 metal-binding site [ion binding] 568816002331 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816002332 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 568816002333 periplasmic chaperone; Provisional; Region: PRK10780 568816002334 OstA-like protein; Region: OstA_2; pfam13100 568816002335 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 568816002336 dimer interface [polypeptide binding]; other site 568816002337 active site 568816002338 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 568816002339 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 568816002340 putative ribose interaction site [chemical binding]; other site 568816002341 putative ADP binding site [chemical binding]; other site 568816002342 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816002343 active site 568816002344 HIGH motif; other site 568816002345 nucleotide binding site [chemical binding]; other site 568816002346 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 568816002347 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 568816002348 NADP binding site [chemical binding]; other site 568816002349 homopentamer interface [polypeptide binding]; other site 568816002350 substrate binding site [chemical binding]; other site 568816002351 active site 568816002352 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 568816002353 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 568816002354 active site 568816002355 motif I; other site 568816002356 motif II; other site 568816002357 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568816002358 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 568816002359 putative active site [active] 568816002360 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568816002361 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 568816002362 putative active site [active] 568816002363 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 568816002364 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 568816002365 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 568816002366 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 568816002367 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 568816002368 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 568816002369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002370 active site 568816002371 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 568816002372 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 568816002373 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 568816002374 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816002375 catalytic residue [active] 568816002376 Protein of unknown function (DUF552); Region: DUF552; cl00775 568816002377 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 568816002378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002379 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 568816002380 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 568816002381 RNA binding surface [nucleotide binding]; other site 568816002382 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 568816002383 catalytic core [active] 568816002384 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 568816002385 Haemagglutinin; Region: HIM; pfam05662 568816002386 Haemagglutinin; Region: HIM; pfam05662 568816002387 S-layer homology domain; Region: SLH; pfam00395 568816002388 NADH dehydrogenase subunit G; Validated; Region: PRK08493 568816002389 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 568816002390 FMN binding site [chemical binding]; other site 568816002391 dimer interface [polypeptide binding]; other site 568816002392 Asp23 family; Region: Asp23; cl00574 568816002393 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 568816002394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002395 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 568816002396 NMT1-like family; Region: NMT1_2; cl15260 568816002397 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816002398 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816002399 metal binding site [ion binding]; metal-binding site 568816002400 Amino acid permease; Region: AA_permease_2; pfam13520 568816002401 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 568816002402 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 568816002403 active site 568816002404 metal binding site [ion binding]; metal-binding site 568816002405 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 568816002406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002407 translocation protein TolB; Provisional; Region: tolB; PRK04922 568816002408 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 568816002409 dimer interface [polypeptide binding]; other site 568816002410 pyridoxamine kinase; Validated; Region: PRK05756 568816002411 pyridoxal binding site [chemical binding]; other site 568816002412 ATP binding site [chemical binding]; other site 568816002413 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 568816002414 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 568816002415 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 568816002416 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 568816002417 dimer interface [polypeptide binding]; other site 568816002418 putative anticodon binding site; other site 568816002419 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 568816002420 motif 1; other site 568816002421 active site 568816002422 motif 2; other site 568816002423 motif 3; other site 568816002424 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 568816002425 dimer interface [polypeptide binding]; other site 568816002426 putative tRNA-binding site [nucleotide binding]; other site 568816002427 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 568816002428 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816002429 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816002430 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 568816002431 Peptidase family C69; Region: Peptidase_C69; pfam03577 568816002432 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 568816002433 FtsX-like permease family; Region: FtsX; cl15850 568816002434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 568816002435 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 568816002436 Walker A/P-loop; other site 568816002437 ATP binding site [chemical binding]; other site 568816002438 Q-loop/lid; other site 568816002439 ABC transporter signature motif; other site 568816002440 Walker B; other site 568816002441 D-loop; other site 568816002442 H-loop/switch region; other site 568816002443 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 568816002444 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 568816002445 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 568816002446 dimer interface [polypeptide binding]; other site 568816002447 active site 568816002448 Predicted peptidase [General function prediction only]; Region: COG4099 568816002449 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 568816002450 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 568816002451 Walker A/P-loop; other site 568816002452 ATP binding site [chemical binding]; other site 568816002453 Q-loop/lid; other site 568816002454 ABC transporter signature motif; other site 568816002455 Walker B; other site 568816002456 D-loop; other site 568816002457 H-loop/switch region; other site 568816002458 NIL domain; Region: NIL; cl09633 568816002459 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 568816002460 dimer interface [polypeptide binding]; other site 568816002461 conserved gate region; other site 568816002462 ABC-ATPase subunit interface; other site 568816002463 Helix-turn-helix domains; Region: HTH; cl00088 568816002464 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 568816002465 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 ATP-dependent...; Region: HisRS-like_core; cd00773 568816002466 dimer interface [polypeptide binding]; other site 568816002467 motif 1; other site 568816002468 active site 568816002469 motif 2; other site 568816002470 motif 3; other site 568816002471 ATP phosphoribosyltransferase; Region: HisG; cl15266 568816002472 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 568816002473 histidinol dehydrogenase; Region: hisD; TIGR00069 568816002474 NAD binding site [chemical binding]; other site 568816002475 dimerization interface [polypeptide binding]; other site 568816002476 product binding site; other site 568816002477 substrate binding site [chemical binding]; other site 568816002478 zinc binding site [ion binding]; other site 568816002479 catalytic residues [active] 568816002480 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 568816002481 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 568816002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816002483 homodimer interface [polypeptide binding]; other site 568816002484 catalytic residue [active] 568816002485 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 568816002486 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 568816002487 3-fold/trimer interface [polypeptide binding]; other site 568816002488 putative active site pocket [active] 568816002489 4-fold oligomerization interface [polypeptide binding]; other site 568816002490 metal binding residues [ion binding]; metal-binding site 568816002491 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 568816002492 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 568816002493 putative active site [active] 568816002494 oxyanion strand; other site 568816002495 catalytic triad [active] 568816002496 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 568816002497 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 568816002498 catalytic residues [active] 568816002499 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 568816002500 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 568816002501 substrate binding site [chemical binding]; other site 568816002502 glutamase interaction surface [polypeptide binding]; other site 568816002503 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 568816002504 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 568816002505 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 568816002506 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 568816002507 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 568816002508 active site 568816002509 substrate binding site [chemical binding]; other site 568816002510 metal binding site [ion binding]; metal-binding site 568816002511 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568816002512 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; cl12031 568816002513 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 568816002514 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 568816002515 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 568816002516 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 568816002517 active site 568816002518 dimer interface [polypeptide binding]; other site 568816002519 motif 1; other site 568816002520 motif 2; other site 568816002521 motif 3; other site 568816002522 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 568816002523 anticodon binding site; other site 568816002524 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 568816002525 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 568816002526 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 568816002527 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 568816002528 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 568816002529 L13 binding site [polypeptide binding]; other site 568816002530 pyruvate carboxylase; Reviewed; Region: PRK12999 568816002531 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568816002532 ATP-grasp domain; Region: ATP-grasp_4; cl03087 568816002533 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 568816002534 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816002535 active site 568816002536 catalytic residues [active] 568816002537 metal binding site [ion binding]; metal-binding site 568816002538 homodimer binding site [polypeptide binding]; other site 568816002539 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 568816002540 carboxyltransferase (CT) interaction site; other site 568816002541 biotinylation site [posttranslational modification]; other site 568816002542 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 568816002543 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 568816002544 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 568816002545 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 568816002546 active site 568816002547 HIGH motif; other site 568816002548 dimer interface [polypeptide binding]; other site 568816002549 KMSKS motif; other site 568816002550 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 568816002551 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 568816002552 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 568816002553 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 568816002554 active site 568816002555 8-oxo-dGMP binding site [chemical binding]; other site 568816002556 nudix motif; other site 568816002557 metal binding site [ion binding]; metal-binding site 568816002558 Transglycosylase; Region: Transgly; cl07896 568816002559 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 568816002560 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816002561 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 568816002562 Peptidase family U32; Region: Peptidase_U32; cl03113 568816002563 Collagenase; Region: DUF3656; pfam12392 568816002564 Peptidase family U32; Region: Peptidase_U32; cl03113 568816002565 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 568816002566 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 568816002567 Walker A/P-loop; other site 568816002568 ATP binding site [chemical binding]; other site 568816002569 Q-loop/lid; other site 568816002570 ABC transporter signature motif; other site 568816002571 Walker B; other site 568816002572 D-loop; other site 568816002573 H-loop/switch region; other site 568816002574 Smr domain; Region: Smr; cl02619 568816002575 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 568816002576 GTP-binding protein LepA; Provisional; Region: PRK05433 568816002577 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 568816002578 G1 box; other site 568816002579 putative GEF interaction site [polypeptide binding]; other site 568816002580 GTP/Mg2+ binding site [chemical binding]; other site 568816002581 Switch I region; other site 568816002582 G2 box; other site 568816002583 G3 box; other site 568816002584 Switch II region; other site 568816002585 G4 box; other site 568816002586 G5 box; other site 568816002587 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 568816002588 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 568816002589 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 568816002590 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816002591 DNA-binding site [nucleotide binding]; DNA binding site 568816002592 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568816002593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816002594 DNA-binding site [nucleotide binding]; DNA binding site 568816002595 FCD domain; Region: FCD; cl11656 568816002596 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 568816002597 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 568816002598 transmembrane helices; other site 568816002599 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 568816002600 Fumarase C-terminus; Region: Fumerase_C; cl00795 568816002601 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 568816002602 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 568816002603 FeS/SAM binding site; other site 568816002604 HemN C-terminal domain; Region: HemN_C; pfam06969 568816002605 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 568816002606 Helix-turn-helix domains; Region: HTH; cl00088 568816002607 HrcA protein C terminal domain; Region: HrcA; pfam01628 568816002608 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 568816002609 dimer interface [polypeptide binding]; other site 568816002610 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 568816002611 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 568816002612 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 568816002613 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 568816002614 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 568816002615 HSP70 interaction site [polypeptide binding]; other site 568816002616 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 568816002617 substrate binding site [polypeptide binding]; other site 568816002618 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 568816002619 Zn binding sites [ion binding]; other site 568816002620 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 568816002621 dimer interface [polypeptide binding]; other site 568816002622 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 568816002623 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816002624 MatE; Region: MatE; cl10513 568816002625 MatE; Region: MatE; cl10513 568816002626 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 568816002627 Y-family of DNA polymerases; Region: PolY; cl12025 568816002628 active site 568816002629 DNA binding site [nucleotide binding] 568816002630 LytTr DNA-binding domain; Region: LytTR; cl04498 568816002631 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 568816002632 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568816002633 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 568816002634 FeS/SAM binding site; other site 568816002635 TRAM domain; Region: TRAM; cl01282 568816002636 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 568816002637 MutS domain I; Region: MutS_I; pfam01624 568816002638 MutS domain II; Region: MutS_II; pfam05188 568816002639 MutS family domain IV; Region: MutS_IV; pfam05190 568816002640 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 568816002641 Walker A/P-loop; other site 568816002642 ATP binding site [chemical binding]; other site 568816002643 Q-loop/lid; other site 568816002644 ABC transporter signature motif; other site 568816002645 Walker B; other site 568816002646 D-loop; other site 568816002647 H-loop/switch region; other site 568816002648 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 568816002649 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 568816002650 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 568816002651 ATP binding site [chemical binding]; other site 568816002652 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 568816002653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002654 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 568816002655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002656 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 568816002657 Sm1 motif; other site 568816002658 D1 - D2 interaction site; other site 568816002659 D3 - B interaction site; other site 568816002660 Hfq - Hfq interaction site; other site 568816002661 RNA binding pocket [nucleotide binding]; other site 568816002662 Sm2 motif; other site 568816002663 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 568816002664 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 568816002665 active site 568816002666 Int/Topo IB signature motif; other site 568816002667 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 568816002668 NodB motif; other site 568816002669 putative active site [active] 568816002670 putative catalytic site [active] 568816002671 Zn binding site [ion binding]; other site 568816002672 Peptidase family M48; Region: Peptidase_M48; cl12018 568816002673 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 568816002674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002675 oxaloacetate decarboxylase; Provisional; Region: PRK12331 568816002676 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816002677 active site 568816002678 metal binding site [ion binding]; metal-binding site 568816002679 homodimer binding site [polypeptide binding]; other site 568816002680 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 568816002681 dimerization domain swap beta strand [polypeptide binding]; other site 568816002682 regulatory protein interface [polypeptide binding]; other site 568816002683 active site 568816002684 regulatory phosphorylation site [posttranslational modification]; other site 568816002685 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 568816002686 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 568816002687 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 568816002688 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; cl09155 568816002689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002690 Uncharacterized conserved protein [Function unknown]; Region: COG0327 568816002691 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 568816002692 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 568816002693 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816002694 Zn2+ binding site [ion binding]; other site 568816002695 Mg2+ binding site [ion binding]; other site 568816002696 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002697 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816002698 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002700 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002701 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 568816002702 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 568816002703 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 568816002704 putative active site [active] 568816002705 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 568816002706 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 568816002707 substrate binding site; other site 568816002708 dimer interface; other site 568816002709 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 568816002710 homotrimer interaction site [polypeptide binding]; other site 568816002711 zinc binding site [ion binding]; other site 568816002712 CDP-binding sites; other site 568816002713 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 568816002714 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568816002715 active site 568816002716 HIGH motif; other site 568816002717 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568816002718 active site 568816002719 KMSKS motif; other site 568816002720 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 568816002721 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 568816002722 active site 568816002723 HIGH motif; other site 568816002724 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 568816002725 KMSKS motif; other site 568816002726 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 568816002727 tRNA binding surface [nucleotide binding]; other site 568816002728 anticodon binding site; other site 568816002729 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 568816002730 active site 568816002731 metal binding site [ion binding]; metal-binding site 568816002732 dimerization interface [polypeptide binding]; other site 568816002733 Thymidylate synthase complementing protein; Region: Thy1; cl03630 568816002734 Uncharacterized conserved protein [Function unknown]; Region: COG1284 568816002735 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816002736 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816002737 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 568816002738 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 568816002739 DNA repair protein RadA; Provisional; Region: PRK11823 568816002740 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 568816002741 Walker A motif/ATP binding site; other site 568816002742 ATP binding site [chemical binding]; other site 568816002743 Walker B motif; other site 568816002744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002745 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002746 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568816002747 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 568816002748 catalytic residues [active] 568816002749 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 568816002750 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 568816002751 Ligand binding site; other site 568816002752 Putative Catalytic site; other site 568816002753 DXD motif; other site 568816002754 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 568816002755 NlpC/P60 family; Region: NLPC_P60; cl11438 568816002756 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 568816002757 Radical SAM superfamily; Region: Radical_SAM; pfam04055 568816002758 FeS/SAM binding site; other site 568816002759 Cupin domain; Region: Cupin_2; cl09118 568816002760 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568816002761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816002762 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002763 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816002764 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002765 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 568816002766 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 568816002767 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 568816002768 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 568816002769 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 568816002770 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 568816002771 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cl09913 568816002772 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 568816002773 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 568816002774 putative metal binding site [ion binding]; other site 568816002775 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 568816002776 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 568816002777 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 568816002778 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 568816002779 dimer interface [polypeptide binding]; other site 568816002780 motif 1; other site 568816002781 active site 568816002782 motif 2; other site 568816002783 motif 3; other site 568816002784 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 568816002785 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 568816002786 putative tRNA-binding site [nucleotide binding]; other site 568816002787 B3/4 domain; Region: B3_4; cl11458 568816002788 tRNA synthetase B5 domain; Region: B5; cl08394 568816002789 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 568816002790 dimer interface [polypeptide binding]; other site 568816002791 motif 1; other site 568816002792 motif 3; other site 568816002793 motif 2; other site 568816002794 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 568816002795 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 568816002796 active site 568816002797 tetramer interface; other site 568816002798 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 568816002799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002800 UDP-galactopyranose mutase; Region: GLF; pfam03275 568816002801 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 568816002802 LicD family; Region: LicD; cl01378 568816002803 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 568816002804 putative transposase OrfB; Reviewed; Region: PHA02517 568816002805 HTH-like domain; Region: HTH_21; pfam13276 568816002806 Integrase core domain; Region: rve; cl01316 568816002807 Integrase core domain; Region: rve_3; cl15866 568816002808 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 568816002809 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816002810 catalytic residue [active] 568816002811 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816002812 active site 568816002813 nucleotide binding site [chemical binding]; other site 568816002814 HIGH motif; other site 568816002815 KMSKS motif; other site 568816002816 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 568816002817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002818 LicD family; Region: LicD; cl01378 568816002819 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 568816002820 substrate binding site; other site 568816002821 dimer interface; other site 568816002822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002823 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 568816002824 NAD(P) binding site [chemical binding]; other site 568816002825 active site 568816002826 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 568816002827 Probable Catalytic site; other site 568816002828 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 568816002829 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 568816002830 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 568816002831 substrate binding site; other site 568816002832 tetramer interface; other site 568816002833 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 568816002834 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 568816002835 NAD binding site [chemical binding]; other site 568816002836 substrate binding site [chemical binding]; other site 568816002837 homodimer interface [polypeptide binding]; other site 568816002838 active site 568816002839 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 568816002840 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 568816002841 NADP binding site [chemical binding]; other site 568816002842 active site 568816002843 putative substrate binding site [chemical binding]; other site 568816002844 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 568816002845 active site 568816002846 Cupin domain; Region: Cupin_2; cl09118 568816002847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002848 active site 568816002849 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 568816002850 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002851 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 568816002852 active site 568816002853 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 568816002854 MatE; Region: MatE; cl10513 568816002855 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 568816002856 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 568816002857 active site 568816002858 metal binding site [ion binding]; metal-binding site 568816002859 Membrane transport protein; Region: Mem_trans; cl09117 568816002860 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816002861 Helix-turn-helix domains; Region: HTH; cl00088 568816002862 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 568816002863 putative active site [active] 568816002864 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 568816002865 putative active site [active] 568816002866 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 568816002867 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568816002868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002869 dihydroorotase; Validated; Region: pyrC; PRK09357 568816002870 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 568816002871 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 568816002872 active site 568816002873 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 568816002874 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 568816002875 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 568816002876 catalytic site [active] 568816002877 subunit interface [polypeptide binding]; other site 568816002878 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 568816002879 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568816002880 ATP-grasp domain; Region: ATP-grasp_4; cl03087 568816002881 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 568816002882 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568816002883 ATP-grasp domain; Region: ATP-grasp_4; cl03087 568816002884 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 568816002885 IMP binding site; other site 568816002886 dimer interface [polypeptide binding]; other site 568816002887 interdomain contacts; other site 568816002888 partial ornithine binding site; other site 568816002889 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 568816002890 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 568816002891 FAD binding pocket [chemical binding]; other site 568816002892 FAD binding motif [chemical binding]; other site 568816002893 phosphate binding motif [ion binding]; other site 568816002894 beta-alpha-beta structure motif; other site 568816002895 NAD binding pocket [chemical binding]; other site 568816002896 Iron coordination center [ion binding]; other site 568816002897 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 568816002898 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 568816002899 heterodimer interface [polypeptide binding]; other site 568816002900 active site 568816002901 FMN binding site [chemical binding]; other site 568816002902 homodimer interface [polypeptide binding]; other site 568816002903 substrate binding site [chemical binding]; other site 568816002904 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 contains two...; Region: OMP_decarboxylase_like; cd04725 568816002905 active site 568816002906 dimer interface [polypeptide binding]; other site 568816002907 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 568816002908 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816002909 active site 568816002910 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 568816002911 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 568816002912 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816002913 catalytic residue [active] 568816002914 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 568816002915 thymidylate kinase; Validated; Region: tmk; PRK00698 568816002916 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 568816002917 TMP-binding site; other site 568816002918 ATP-binding site [chemical binding]; other site 568816002919 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 568816002920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002921 PSP1 C-terminal conserved region; Region: PSP1; cl00770 568816002922 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 568816002923 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 568816002924 S-adenosylmethionine binding site [chemical binding]; other site 568816002925 Predicted methyltransferases [General function prediction only]; Region: COG0313 568816002926 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 568816002927 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 568816002928 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 568816002929 active site 568816002930 HIGH motif; other site 568816002931 KMSKS motif; other site 568816002932 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 568816002933 tRNA binding surface [nucleotide binding]; other site 568816002934 anticodon binding site; other site 568816002935 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 568816002936 dimer interface [polypeptide binding]; other site 568816002937 putative tRNA-binding site [nucleotide binding]; other site 568816002938 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 568816002939 active site 568816002940 Domain of unknown function (DUF348); Region: DUF348; pfam03990 568816002941 G5 domain; Region: G5; pfam07501 568816002942 3D domain; Region: 3D; cl01439 568816002943 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 568816002944 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 568816002945 putative active site [active] 568816002946 putative metal binding site [ion binding]; other site 568816002947 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 568816002948 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 568816002949 S-adenosylmethionine binding site [chemical binding]; other site 568816002950 Cysteine-rich small domain; Region: zf-like; cl00946 568816002951 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 568816002952 oligomerisation interface [polypeptide binding]; other site 568816002953 mobile loop; other site 568816002954 roof hairpin; other site 568816002955 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 568816002956 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 568816002957 ring oligomerisation interface [polypeptide binding]; other site 568816002958 ATP/Mg binding site [chemical binding]; other site 568816002959 stacking interactions; other site 568816002960 hinge regions; other site 568816002961 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 568816002962 dimer interface [polypeptide binding]; other site 568816002963 catalytic triad [active] 568816002964 peroxidatic and resolving cysteines [active] 568816002965 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 568816002966 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 568816002967 putative substrate translocation pore; other site 568816002968 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816002969 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816002970 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816002971 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816002972 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 568816002973 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 568816002974 active site 568816002975 NMT1-like family; Region: NMT1_2; cl15260 568816002976 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 568816002977 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 568816002978 dimer interface [polypeptide binding]; other site 568816002979 conserved gate region; other site 568816002980 putative PBP binding loops; other site 568816002981 ABC-ATPase subunit interface; other site 568816002982 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 568816002983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816002984 Walker A/P-loop; other site 568816002985 ATP binding site [chemical binding]; other site 568816002986 Q-loop/lid; other site 568816002987 ABC transporter signature motif; other site 568816002988 Walker B; other site 568816002989 D-loop; other site 568816002990 H-loop/switch region; other site 568816002991 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 568816002992 Helix-turn-helix domains; Region: HTH; cl00088 568816002993 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816002994 dimerization interface [polypeptide binding]; other site 568816002995 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 568816002996 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568816002997 active site 568816002998 catalytic tetrad [active] 568816002999 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 568816003000 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 568816003001 putative active site [active] 568816003002 metal binding site [ion binding]; metal-binding site 568816003003 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 568816003004 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816003005 dimerization interface [polypeptide binding]; other site 568816003006 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 568816003007 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 568816003008 dimer interface [polypeptide binding]; other site 568816003009 conserved gate region; other site 568816003010 ABC-ATPase subunit interface; other site 568816003011 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 568816003012 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 568816003013 dimer interface [polypeptide binding]; other site 568816003014 conserved gate region; other site 568816003015 putative PBP binding loops; other site 568816003016 ABC-ATPase subunit interface; other site 568816003017 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 568816003018 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 568816003019 Walker A/P-loop; other site 568816003020 ATP binding site [chemical binding]; other site 568816003021 Q-loop/lid; other site 568816003022 ABC transporter signature motif; other site 568816003023 Walker B; other site 568816003024 D-loop; other site 568816003025 H-loop/switch region; other site 568816003026 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 568816003027 PhoU domain; Region: PhoU; pfam01895 568816003028 PhoU domain; Region: PhoU; pfam01895 568816003029 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 568816003030 AzlC protein; Region: AzlC; cl00570 568816003031 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816003032 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816003033 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 568816003034 putative active site [active] 568816003035 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 568816003036 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 568816003037 active site 568816003038 HIGH motif; other site 568816003039 dimer interface [polypeptide binding]; other site 568816003040 KMSKS motif; other site 568816003041 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816003042 MatE; Region: MatE; cl10513 568816003043 MatE; Region: MatE; cl10513 568816003044 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816003046 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816003047 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003048 AIR carboxylase; Region: AIRC; cl00310 568816003049 amidophosphoribosyltransferase; Region: purF; TIGR01134 568816003050 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 568816003051 active site 568816003052 tetramer interface [polypeptide binding]; other site 568816003053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816003054 active site 568816003055 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 568816003056 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 568816003057 dimerization interface [polypeptide binding]; other site 568816003058 putative ATP binding site [chemical binding]; other site 568816003059 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 568816003060 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 568816003061 active site 568816003062 cosubstrate binding site; other site 568816003063 substrate binding site [chemical binding]; other site 568816003064 catalytic site [active] 568816003065 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 568816003066 purine monophosphate binding site [chemical binding]; other site 568816003067 dimer interface [polypeptide binding]; other site 568816003068 putative catalytic residues [active] 568816003069 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 568816003070 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 568816003071 ATP-grasp domain; Region: ATP-grasp_4; cl03087 568816003072 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 568816003073 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 568816003074 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; cl09108 568816003075 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 key...; Region: CBS_pair_IMPDH_2; cd04602 568816003076 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 the guanine...; Region: IMPDH; cd00381 568816003077 active site 568816003078 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 568816003079 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 568816003080 synthetase active site [active] 568816003081 NTP binding site [chemical binding]; other site 568816003082 metal binding site [ion binding]; metal-binding site 568816003083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816003084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816003085 active site 568816003086 phosphorylation site [posttranslational modification] 568816003087 intermolecular recognition site; other site 568816003088 dimerization interface [polypeptide binding]; other site 568816003089 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 568816003090 DNA binding site [nucleotide binding] 568816003091 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 568816003092 dimer interface [polypeptide binding]; other site 568816003093 phosphorylation site [posttranslational modification] 568816003094 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 568816003095 ATP binding site [chemical binding]; other site 568816003096 Mg2+ binding site [ion binding]; other site 568816003097 G-X-G motif; other site 568816003098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816003099 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816003100 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003101 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003102 TIGR04076 family protein; Region: TIGR04076 568816003103 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 568816003104 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816003105 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 568816003106 active site 568816003107 catalytic residues [active] 568816003108 metal binding site [ion binding]; metal-binding site 568816003109 homodimer binding site [polypeptide binding]; other site 568816003110 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568816003111 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568816003112 DNA binding site [nucleotide binding] 568816003113 domain linker motif; other site 568816003114 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 568816003115 ligand binding site [chemical binding]; other site 568816003116 dimerization interface [polypeptide binding]; other site 568816003117 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; cl12031 568816003118 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568816003119 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; cl12031 568816003120 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816003121 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 568816003122 dimer interface [polypeptide binding]; other site 568816003123 PYR/PP interface [polypeptide binding]; other site 568816003124 TPP binding site [chemical binding]; other site 568816003125 substrate binding site [chemical binding]; other site 568816003126 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568816003127 Domain of unknown function; Region: EKR; cl11037 568816003128 4Fe-4S binding domain; Region: Fer4; cl02805 568816003129 4Fe-4S binding domain; Region: Fer4; cl02805 568816003130 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 568816003131 TPP-binding site [chemical binding]; other site 568816003132 dimer interface [polypeptide binding]; other site 568816003133 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568816003134 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816003135 substrate binding site [chemical binding]; other site 568816003136 ligand binding site [chemical binding]; other site 568816003137 homoaconitase; Region: h_aconitase; TIGR00139 568816003138 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 568816003139 substrate binding site [chemical binding]; other site 568816003140 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568816003141 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816003142 substrate binding site [chemical binding]; other site 568816003143 ligand binding site [chemical binding]; other site 568816003144 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 568816003145 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 568816003146 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 568816003147 Acetokinase family; Region: Acetate_kinase; cl01029 568816003148 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816003149 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816003150 Cupin domain; Region: Cupin_2; cl09118 568816003151 Cupin domain; Region: Cupin_2; cl09118 568816003152 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 568816003153 Asp23 family; Region: Asp23; cl00574 568816003154 Asp23 family; Region: Asp23; cl00574 568816003155 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 568816003156 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 568816003157 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 568816003158 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 568816003159 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 568816003160 generic binding surface II; other site 568816003161 generic binding surface I; other site 568816003162 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 568816003163 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 568816003164 substrate binding pocket [chemical binding]; other site 568816003165 chain length determination region; other site 568816003166 substrate-Mg2+ binding site; other site 568816003167 catalytic residues [active] 568816003168 aspartate-rich region 1; other site 568816003169 active site lid residues [active] 568816003170 aspartate-rich region 2; other site 568816003171 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 568816003172 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 568816003173 TPP-binding site; other site 568816003174 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 568816003175 PYR/PP interface [polypeptide binding]; other site 568816003176 dimer interface [polypeptide binding]; other site 568816003177 TPP binding site [chemical binding]; other site 568816003178 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816003179 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 568816003180 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 568816003181 RNA binding surface [nucleotide binding]; other site 568816003182 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; cl15754 568816003183 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 568816003184 arginine repressor; Provisional; Region: PRK04280 568816003185 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 568816003186 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 568816003187 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 568816003188 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 568816003189 Walker A/P-loop; other site 568816003190 ATP binding site [chemical binding]; other site 568816003191 Q-loop/lid; other site 568816003192 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 568816003193 ABC transporter signature motif; other site 568816003194 Walker B; other site 568816003195 D-loop; other site 568816003196 H-loop/switch region; other site 568816003197 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 568816003198 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 568816003199 dimer interface [polypeptide binding]; other site 568816003200 ADP-ribose binding site [chemical binding]; other site 568816003201 active site 568816003202 nudix motif; other site 568816003203 metal binding site [ion binding]; metal-binding site 568816003204 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 568816003205 Uncharacterized conserved protein [Function unknown]; Region: COG2461 568816003206 Family of unknown function (DUF438); Region: DUF438; pfam04282 568816003207 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 568816003208 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 568816003209 NMT1-like family; Region: NMT1_2; cl15260 568816003210 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568816003211 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 568816003212 Walker A/P-loop; other site 568816003213 ATP binding site [chemical binding]; other site 568816003214 Q-loop/lid; other site 568816003215 ABC transporter signature motif; other site 568816003216 Walker B; other site 568816003217 D-loop; other site 568816003218 H-loop/switch region; other site 568816003219 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568816003220 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 568816003221 ABC-ATPase subunit interface; other site 568816003222 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 568816003223 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 568816003224 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 568816003225 NMT1-like family; Region: NMT1_2; cl15260 568816003226 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816003227 MatE; Region: MatE; cl10513 568816003228 MatE; Region: MatE; cl10513 568816003229 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 568816003230 hypothetical protein; Provisional; Region: PRK08185 568816003231 intersubunit interface [polypeptide binding]; other site 568816003232 active site 568816003233 zinc binding site [ion binding]; other site 568816003234 Na+ binding site [ion binding]; other site 568816003235 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 568816003236 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 568816003237 active site 568816003238 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 568816003239 trimer interface [polypeptide binding]; other site 568816003240 active site 568816003241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003242 dihydrodipicolinate reductase; Provisional; Region: PRK00048 568816003243 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 568816003244 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 568816003245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003246 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 568816003247 aspartate kinase I; Reviewed; Region: PRK08210 568816003248 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 568816003249 nucleotide binding site [chemical binding]; other site 568816003250 substrate binding site [chemical binding]; other site 568816003251 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816003252 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 568816003253 dihydrodipicolinate synthase; Region: dapA; TIGR00674 568816003254 dimer interface [polypeptide binding]; other site 568816003255 active site 568816003256 catalytic residue [active] 568816003257 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 568816003258 Asp23 family; Region: Asp23; cl00574 568816003259 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 568816003260 RNA/DNA hybrid binding site [nucleotide binding]; other site 568816003261 active site 568816003262 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 568816003263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003264 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 568816003265 NAD(P) binding site [chemical binding]; other site 568816003266 active site 568816003267 NMT1-like family; Region: NMT1_2; cl15260 568816003268 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 568816003269 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816003270 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 568816003271 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 568816003272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816003273 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 568816003274 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816003275 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 568816003276 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 568816003277 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568816003278 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 568816003279 FeS/SAM binding site; other site 568816003280 competence damage-inducible protein A; Provisional; Region: PRK00549 568816003281 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 568816003282 putative MPT binding site; other site 568816003283 Competence-damaged protein; Region: CinA; cl00666 568816003284 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 568816003285 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 568816003286 ATP binding site [chemical binding]; other site 568816003287 Mg++ binding site [ion binding]; other site 568816003288 motif III; other site 568816003289 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 568816003290 nucleotide binding region [chemical binding]; other site 568816003291 ATP-binding site [chemical binding]; other site 568816003292 DbpA RNA binding domain; Region: DbpA; pfam03880 568816003293 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 568816003294 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 568816003295 HflX GTPase family; Region: HflX; cd01878 568816003296 G1 box; other site 568816003297 GTP/Mg2+ binding site [chemical binding]; other site 568816003298 Switch I region; other site 568816003299 G2 box; other site 568816003300 G3 box; other site 568816003301 Switch II region; other site 568816003302 G4 box; other site 568816003303 G5 box; other site 568816003304 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 568816003305 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 568816003306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816003307 catalytic residue [active] 568816003308 LexA repressor; Validated; Region: PRK00215 568816003309 Helix-turn-helix domains; Region: HTH; cl00088 568816003310 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 568816003311 Catalytic site [active] 568816003312 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 568816003313 putative substrate binding pocket [chemical binding]; other site 568816003314 active site 568816003315 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 568816003316 pyrophosphatase PpaX; Provisional; Region: PRK13288 568816003317 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 568816003318 motif II; other site 568816003319 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816003320 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816003321 metal binding site [ion binding]; metal-binding site 568816003322 dimer interface [polypeptide binding]; other site 568816003323 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 568816003324 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 568816003325 DXD motif; other site 568816003326 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 568816003327 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 568816003328 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 568816003329 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 568816003330 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 568816003331 G1 box; other site 568816003332 putative GEF interaction site [polypeptide binding]; other site 568816003333 GTP/Mg2+ binding site [chemical binding]; other site 568816003334 Switch I region; other site 568816003335 G2 box; other site 568816003336 G3 box; other site 568816003337 Switch II region; other site 568816003338 G4 box; other site 568816003339 G5 box; other site 568816003340 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 568816003341 homoserine kinase; Provisional; Region: PRK01212 568816003342 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 568816003343 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 568816003344 homoserine dehydrogenase; Provisional; Region: PRK06349 568816003345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003346 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 568816003347 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 568816003348 hypothetical protein; Provisional; Region: PRK04435 568816003349 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 568816003350 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 568816003351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003352 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 568816003353 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 568816003354 GTP-binding protein Der; Reviewed; Region: PRK00093 568816003355 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 568816003356 G1 box; other site 568816003357 GTP/Mg2+ binding site [chemical binding]; other site 568816003358 Switch I region; other site 568816003359 G2 box; other site 568816003360 Switch II region; other site 568816003361 G3 box; other site 568816003362 G4 box; other site 568816003363 G5 box; other site 568816003364 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 568816003365 G1 box; other site 568816003366 GTP/Mg2+ binding site [chemical binding]; other site 568816003367 Switch I region; other site 568816003368 G2 box; other site 568816003369 G3 box; other site 568816003370 Switch II region; other site 568816003371 G4 box; other site 568816003372 G5 box; other site 568816003373 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 568816003374 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 568816003375 homotetramer interface [polypeptide binding]; other site 568816003376 FMN binding site [chemical binding]; other site 568816003377 homodimer contacts [polypeptide binding]; other site 568816003378 putative active site [active] 568816003379 putative substrate binding site [chemical binding]; other site 568816003380 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 568816003381 LytB protein; Region: LYTB; cl00507 568816003382 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 568816003383 RNA binding site [nucleotide binding]; other site 568816003384 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 568816003385 RNA binding site [nucleotide binding]; other site 568816003386 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 568816003387 RNA binding site [nucleotide binding]; other site 568816003388 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 568816003389 RNA binding site [nucleotide binding]; other site 568816003390 domain interface; other site 568816003391 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 568816003392 putative acyl-acceptor binding pocket; other site 568816003393 cytidylate kinase; Provisional; Region: cmk; PRK00023 568816003394 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 568816003395 CMP-binding site; other site 568816003396 The sites determining sugar specificity; other site 568816003397 HI0933-like protein; Region: HI0933_like; pfam03486 568816003398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003399 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 568816003400 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 568816003401 RNA binding surface [nucleotide binding]; other site 568816003402 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 568816003403 active site 568816003404 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 568816003405 ScpA/B protein; Region: ScpA_ScpB; cl00598 568816003406 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 568816003407 active site 568816003408 putative substrate binding region [chemical binding]; other site 568816003409 transcriptional repressor CodY; Validated; Region: PRK04158 568816003410 CodY GAF-like domain; Region: CodY; pfam06018 568816003411 Helix-turn-helix domains; Region: HTH; cl00088 568816003412 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 568816003413 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 568816003414 active site 568816003415 Int/Topo IB signature motif; other site 568816003416 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 568816003417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003418 DNA topoisomerase I; Validated; Region: PRK05582 568816003419 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 568816003420 active site 568816003421 interdomain interaction site; other site 568816003422 putative metal-binding site [ion binding]; other site 568816003423 nucleotide binding site [chemical binding]; other site 568816003424 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 568816003425 domain I; other site 568816003426 DNA binding groove [nucleotide binding] 568816003427 phosphate binding site [ion binding]; other site 568816003428 domain II; other site 568816003429 domain III; other site 568816003430 nucleotide binding site [chemical binding]; other site 568816003431 catalytic site [active] 568816003432 domain IV; other site 568816003433 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 568816003434 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 568816003435 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 568816003436 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 568816003437 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 568816003438 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 568816003439 G1 box; other site 568816003440 GTP/Mg2+ binding site [chemical binding]; other site 568816003441 Switch I region; other site 568816003442 G2 box; other site 568816003443 Switch II region; other site 568816003444 G3 box; other site 568816003445 G4 box; other site 568816003446 G5 box; other site 568816003447 Sugar fermentation stimulation protein; Region: SfsA; cl00647 568816003448 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 568816003449 GIY-YIG motif/motif A; other site 568816003450 putative active site [active] 568816003451 putative metal binding site [ion binding]; other site 568816003452 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 568816003453 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 568816003454 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 568816003455 Peptidase M16C associated; Region: M16C_assoc; pfam08367 568816003456 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 568816003457 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 568816003458 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 568816003459 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 568816003460 dimerization interface [polypeptide binding]; other site 568816003461 ATP binding site [chemical binding]; other site 568816003462 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 568816003463 dimerization interface [polypeptide binding]; other site 568816003464 ATP binding site [chemical binding]; other site 568816003465 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 568816003466 putative active site [active] 568816003467 catalytic triad [active] 568816003468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816003469 Sterol carrier protein domain; Region: SCP2_2; pfam13530 568816003470 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 568816003471 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 568816003472 catalytic core [active] 568816003473 elongation factor P; Validated; Region: PRK00529 568816003474 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 568816003475 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 568816003476 RNA binding site [nucleotide binding]; other site 568816003477 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 568816003478 RNA binding site [nucleotide binding]; other site 568816003479 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 568816003480 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 568816003481 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 568816003482 active site 568816003483 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 568816003484 Peptidase family U32; Region: Peptidase_U32; cl03113 568816003485 YceG-like family; Region: YceG; pfam02618 568816003486 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 568816003487 dimerization interface [polypeptide binding]; other site 568816003488 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 568816003489 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 568816003490 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 568816003491 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 568816003492 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 formation of...; Region: AlaRS_core; cd00673 568816003493 motif 1; other site 568816003494 active site 568816003495 motif 2; other site 568816003496 motif 3; other site 568816003497 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 568816003498 DHHA1 domain; Region: DHHA1; pfam02272 568816003499 aspartate aminotransferase; Provisional; Region: PRK06836 568816003500 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 568816003501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816003502 homodimer interface [polypeptide binding]; other site 568816003503 catalytic residue [active] 568816003504 putative hydratase; Provisional; Region: PRK11413 568816003505 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816003506 substrate binding site [chemical binding]; other site 568816003507 ligand binding site [chemical binding]; other site 568816003508 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 568816003509 substrate binding site [chemical binding]; other site 568816003510 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 568816003511 isocitrate dehydrogenase; Validated; Region: PRK06451 568816003512 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; cd00625 568816003513 transmembrane helices; other site 568816003514 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 568816003515 PrpF protein; Region: PrpF; pfam04303 568816003516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003517 Helix-turn-helix domains; Region: HTH; cl00088 568816003518 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816003519 dimerization interface [polypeptide binding]; other site 568816003520 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 568816003521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003522 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 568816003523 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 568816003524 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 568816003525 non-heme iron binding site [ion binding]; other site 568816003526 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 568816003527 SmpB-tmRNA interface; other site 568816003528 ribonuclease R; Region: RNase_R; TIGR02063 568816003529 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 568816003530 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 568816003531 RNB domain; Region: RNB; pfam00773 568816003532 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 play an important...; Region: S1_RNase_R; cd04471 568816003533 RNA binding site [nucleotide binding]; other site 568816003534 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 568816003535 active site 2 [active] 568816003536 active site 1 [active] 568816003537 Esterase/lipase [General function prediction only]; Region: COG1647 568816003538 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; cl12031 568816003539 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 568816003540 amidase catalytic site [active] 568816003541 Zn binding residues [ion binding]; other site 568816003542 substrate binding site [chemical binding]; other site 568816003543 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 568816003544 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 568816003545 FeS/SAM binding site; other site 568816003546 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 568816003547 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 568816003548 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 568816003549 FeS/SAM binding site; other site 568816003550 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 568816003551 Phage tail protein; Region: Sipho_tail; pfam05709 568816003552 Mu-like prophage protein [General function prediction only]; Region: COG3941 568816003553 tape measure domain; Region: tape_meas_nterm; TIGR02675 568816003554 Phage-related protein [Function unknown]; Region: COG5412 568816003555 membrane protein P6; Region: PHA01399 568816003556 Phage major tail protein 2; Region: Phage_tail_2; cl11463 568816003557 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 568816003558 P22 coat protein - gene protein 5; Region: P22_CoatProtein; cl10302 568816003559 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 568816003560 Protein of unknown function (DUF445); Region: DUF445; pfam04286 568816003561 Phage terminase large subunit; Region: Terminase_3; cl12054 568816003562 Terminase-like family; Region: Terminase_6; pfam03237 568816003563 Protein of unknown function (DUF722); Region: DUF722; pfam05263 568816003564 Helix-turn-helix domains; Region: HTH; cl00088 568816003565 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 568816003566 RecT family; Region: RecT; cl04285 568816003567 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 568816003568 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 568816003569 putative peptidoglycan binding site; other site 568816003570 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816003571 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 568816003572 non-specific DNA binding site [nucleotide binding]; other site 568816003573 salt bridge; other site 568816003574 sequence-specific DNA binding site [nucleotide binding]; other site 568816003575 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 568816003576 non-specific DNA binding site [nucleotide binding]; other site 568816003577 salt bridge; other site 568816003578 sequence-specific DNA binding site [nucleotide binding]; other site 568816003579 Abi-like protein; Region: Abi_2; cl01988 568816003580 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 568816003581 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 568816003582 Int/Topo IB signature motif; other site 568816003583 pantoate--beta-alanine ligase; Region: panC; TIGR00018 568816003584 Pantoate-beta-alanine ligase; Region: PanC; cd00560 568816003585 active site 568816003586 ATP-binding site [chemical binding]; other site 568816003587 pantoate-binding site; other site 568816003588 HXXH motif; other site 568816003589 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 568816003590 tetramerization interface [polypeptide binding]; other site 568816003591 active site 568816003592 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 568816003593 Membrane transport protein; Region: Mem_trans; cl09117 568816003594 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 568816003595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003596 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568816003597 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003598 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 568816003599 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 568816003600 NAD(P) binding site [chemical binding]; other site 568816003601 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 568816003602 homotrimer interaction site [polypeptide binding]; other site 568816003603 putative active site [active] 568816003604 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 568816003605 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 568816003606 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 568816003607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816003608 DNA-binding site [nucleotide binding]; DNA binding site 568816003609 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 568816003610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816003611 homodimer interface [polypeptide binding]; other site 568816003612 catalytic residue [active] 568816003613 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816003614 potential frameshift: common BLAST hit: gi|348027409|ref|YP_004767214.1| RNA-directed DNA polymerase (Reverse transcriptase) 568816003615 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 568816003616 putative active site [active] 568816003617 putative NTP binding site [chemical binding]; other site 568816003618 putative nucleic acid binding site [nucleotide binding]; other site 568816003619 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 568816003620 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 568816003621 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 568816003622 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816003623 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816003624 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; cl12031 568816003625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003626 Helix-turn-helix domains; Region: HTH; cl00088 568816003627 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816003628 dimerization interface [polypeptide binding]; other site 568816003629 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 568816003630 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568816003631 putative substrate translocation pore; other site 568816003632 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 568816003633 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 568816003634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003635 Helix-turn-helix domains; Region: HTH; cl00088 568816003636 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816003637 dimerization interface [polypeptide binding]; other site 568816003638 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 568816003639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816003640 Family description; Region: UvrD_C_2; cl15862 568816003641 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 568816003642 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 568816003643 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 568816003644 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 568816003645 FAD binding domain; Region: FAD_binding_4; pfam01565 568816003646 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 568816003647 Protein of unknown function (DUF964); Region: DUF964; cl01483 568816003648 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 568816003649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 568816003650 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 568816003651 dimerization interface [polypeptide binding]; other site 568816003652 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 568816003653 dimer interface [polypeptide binding]; other site 568816003654 phosphorylation site [posttranslational modification] 568816003655 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 568816003656 ATP binding site [chemical binding]; other site 568816003657 Mg2+ binding site [ion binding]; other site 568816003658 G-X-G motif; other site 568816003659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816003660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816003661 active site 568816003662 phosphorylation site [posttranslational modification] 568816003663 intermolecular recognition site; other site 568816003664 dimerization interface [polypeptide binding]; other site 568816003665 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 568816003666 DNA binding site [nucleotide binding] 568816003667 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 568816003668 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 568816003669 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 568816003670 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 568816003671 DDE superfamily endonuclease; Region: DDE_5; cl02413 568816003672 Transposase IS200 like; Region: Y1_Tnp; cl00848 568816003673 DDE superfamily endonuclease; Region: DDE_5; cl02413 568816003674 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 568816003675 putative transposase OrfB; Reviewed; Region: PHA02517 568816003676 HTH-like domain; Region: HTH_21; pfam13276 568816003677 Integrase core domain; Region: rve; cl01316 568816003678 Integrase core domain; Region: rve_3; cl15866 568816003679 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816003680 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816003681 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 568816003682 catalytic residues [active] 568816003683 catalytic nucleophile [active] 568816003684 Recombinase; Region: Recombinase; pfam07508 568816003685 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816003686 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816003687 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 568816003688 catalytic residues [active] 568816003689 catalytic nucleophile [active] 568816003690 Recombinase; Region: Recombinase; pfam07508 568816003691 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816003692 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816003693 Helix-turn-helix domains; Region: HTH; cl00088 568816003694 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816003695 minor groove reading motif; other site 568816003696 helix-hairpin-helix signature motif; other site 568816003697 active site 568816003698 SacI restriction endonuclease; Region: RE_SacI; pfam09566 568816003699 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 568816003700 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 568816003701 cofactor binding site; other site 568816003702 DNA binding site [nucleotide binding] 568816003703 substrate interaction site [chemical binding]; other site 568816003704 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 568816003705 active site 568816003706 metal binding site [ion binding]; metal-binding site 568816003707 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 568816003708 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 568816003709 Baseplate J-like protein; Region: Baseplate_J; cl01294 568816003710 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 568816003711 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 568816003712 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 568816003713 Phage-related protein [Function unknown]; Region: COG5412 568816003714 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; cl00352 568816003715 Phage XkdN-like protein; Region: XkdN; pfam08890 568816003716 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 568816003717 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 568816003718 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 568816003719 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 568816003720 oligomerization interface [polypeptide binding]; other site 568816003721 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 568816003722 Phage capsid family; Region: Phage_capsid; pfam05065 568816003723 Clp protease; Region: CLP_protease; pfam00574 568816003724 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 568816003725 oligomer interface [polypeptide binding]; other site 568816003726 active site residues [active] 568816003727 Phage-related protein [Function unknown]; Region: COG4695; cl01923 568816003728 Phage portal protein; Region: Phage_portal; pfam04860 568816003729 Phage Terminase; Region: Terminase_1; pfam03354 568816003730 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 568816003731 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 568816003732 Phage Terminase; Region: Terminase_1; pfam03354 568816003733 Phage terminase, small subunit; Region: Terminase_4; cl01525 568816003734 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 568816003735 putative active site pocket [active] 568816003736 dimerization interface [polypeptide binding]; other site 568816003737 putative catalytic residue [active] 568816003738 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 568816003739 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; cl15754 568816003740 cofactor binding site; other site 568816003741 DNA binding site [nucleotide binding] 568816003742 substrate interaction site [chemical binding]; other site 568816003743 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; cl15754 568816003744 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 568816003745 ParB-like nuclease domain; Region: ParBc; cl02129 568816003746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003747 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 568816003748 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816003749 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 568816003750 ATP binding site [chemical binding]; other site 568816003751 putative Mg++ binding site [ion binding]; other site 568816003752 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 568816003753 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 568816003754 hypothetical protein; Provisional; Region: PRK14709 568816003755 D5 N terminal like; Region: D5_N; cl07360 568816003756 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 568816003757 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 568816003758 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 568816003759 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 568816003760 active site 568816003761 DNA binding site [nucleotide binding] 568816003762 catalytic site [active] 568816003763 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 568816003764 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 568816003765 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 568816003766 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 568816003767 Baseplate J-like protein; Region: Baseplate_J; cl01294 568816003768 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 568816003769 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 568816003770 Phage XkdN-like protein; Region: XkdN; pfam08890 568816003771 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 568816003772 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 568816003773 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 568816003774 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 568816003775 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 568816003776 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 568816003777 Phage terminase large subunit; Region: Terminase_3; cl12054 568816003778 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 568816003779 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 568816003780 AAA domain; Region: AAA_25; pfam13481 568816003781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816003782 Walker A motif; other site 568816003783 ATP binding site [chemical binding]; other site 568816003784 Walker B motif; other site 568816003785 DEAD-like helicases superfamily; Region: DEXDc; smart00487 568816003786 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 568816003787 ATP binding site [chemical binding]; other site 568816003788 putative Mg++ binding site [ion binding]; other site 568816003789 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 568816003790 nucleotide binding region [chemical binding]; other site 568816003791 ATP-binding site [chemical binding]; other site 568816003792 AAA domain; Region: AAA_24; pfam13479 568816003793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816003794 AAA domain; Region: AAA_23; pfam13476 568816003795 Walker A/P-loop; other site 568816003796 ATP binding site [chemical binding]; other site 568816003797 Q-loop/lid; other site 568816003798 ABC transporter signature motif; other site 568816003799 chromosome segregation protein; Provisional; Region: PRK02224 568816003800 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 568816003801 putative peptidoglycan binding site; other site 568816003802 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816003803 BRO family, N-terminal domain; Region: Bro-N; cl10591 568816003804 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 568816003805 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816003806 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 568816003807 non-specific DNA binding site [nucleotide binding]; other site 568816003808 salt bridge; other site 568816003809 sequence-specific DNA binding site [nucleotide binding]; other site 568816003810 Virulence protein [General function prediction only]; Region: COG3943 568816003811 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 568816003812 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 568816003813 active site 568816003814 DNA binding site [nucleotide binding] 568816003815 Int/Topo IB signature motif; other site 568816003816 Rubredoxin [Energy production and conversion]; Region: COG1773 568816003817 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 568816003818 iron binding site [ion binding]; other site 568816003819 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 568816003820 diiron binding motif [ion binding]; other site 568816003821 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 568816003822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003823 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 568816003824 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816003825 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 568816003826 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 568816003827 metal-binding site [ion binding] 568816003828 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 568816003829 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 568816003830 G1 box; other site 568816003831 GTP/Mg2+ binding site [chemical binding]; other site 568816003832 Switch I region; other site 568816003833 G2 box; other site 568816003834 G3 box; other site 568816003835 Switch II region; other site 568816003836 G4 box; other site 568816003837 G5 box; other site 568816003838 Nucleoside recognition; Region: Gate; cl00486 568816003839 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 568816003840 Nucleoside recognition; Region: Gate; cl00486 568816003841 FeoA domain; Region: FeoA; cl00838 568816003842 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 568816003843 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 568816003844 catalytic triad [active] 568816003845 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 568816003846 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 568816003847 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816003848 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816003849 Mechanosensitive ion channel; Region: MS_channel; pfam00924 568816003850 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 568816003851 EamA-like transporter family; Region: EamA; cl01037 568816003852 EamA-like transporter family; Region: EamA; cl01037 568816003853 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 568816003854 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 568816003855 putative transposase OrfB; Reviewed; Region: PHA02517 568816003856 HTH-like domain; Region: HTH_21; pfam13276 568816003857 Integrase core domain; Region: rve; cl01316 568816003858 Integrase core domain; Region: rve_3; cl15866 568816003859 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 568816003860 active site 568816003861 phosphorylation site [posttranslational modification] 568816003862 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 568816003863 active site 568816003864 P-loop; other site 568816003865 phosphorylation site [posttranslational modification] 568816003866 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 568816003867 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 568816003868 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 568816003869 putative substrate binding site [chemical binding]; other site 568816003870 putative ATP binding site [chemical binding]; other site 568816003871 YdjC-like protein; Region: YdjC; cl01344 568816003872 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 568816003873 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 568816003874 AlkA N-terminal domain; Region: AlkA_N; cl05528 568816003875 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 568816003876 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816003877 minor groove reading motif; other site 568816003878 helix-hairpin-helix signature motif; other site 568816003879 substrate binding pocket [chemical binding]; other site 568816003880 active site 568816003881 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 568816003882 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 568816003883 DNA binding site [nucleotide binding] 568816003884 active site 568816003885 EamA-like transporter family; Region: EamA; cl01037 568816003886 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816003887 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816003888 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 568816003889 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 568816003890 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 568816003891 putative NADH binding site [chemical binding]; other site 568816003892 putative active site [active] 568816003893 nudix motif; other site 568816003894 putative metal binding site [ion binding]; other site 568816003895 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 568816003896 trimer interface [polypeptide binding]; other site 568816003897 active site 568816003898 putative arabinose transporter; Provisional; Region: PRK03545 568816003899 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 568816003900 putative substrate translocation pore; other site 568816003901 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568816003902 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; cl00161 568816003903 Flavin Reductases; Region: FlaRed; cl00801 568816003904 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 568816003905 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 568816003906 active site 568816003907 catalytic tetrad [active] 568816003908 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568816003909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003910 Helix-turn-helix domains; Region: HTH; cl00088 568816003911 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816003912 dimerization interface [polypeptide binding]; other site 568816003913 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 568816003914 ABC-2 type transporter; Region: ABC2_membrane; cl11417 568816003915 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 568816003916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816003917 Walker A/P-loop; other site 568816003918 ATP binding site [chemical binding]; other site 568816003919 Q-loop/lid; other site 568816003920 ABC transporter signature motif; other site 568816003921 Walker B; other site 568816003922 D-loop; other site 568816003923 H-loop/switch region; other site 568816003924 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; cl00470 568816003925 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 568816003926 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 568816003927 active site 568816003928 catalytic tetrad [active] 568816003929 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; cl00470 568816003930 catalytic tetrad [active] 568816003931 GMP synthase; Reviewed; Region: guaA; PRK00074 568816003932 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 568816003933 AMP/PPi binding site [chemical binding]; other site 568816003934 candidate oxyanion hole; other site 568816003935 catalytic triad [active] 568816003936 potential glutamine specificity residues [chemical binding]; other site 568816003937 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 568816003938 ATP Binding subdomain [chemical binding]; other site 568816003939 Ligand Binding sites [chemical binding]; other site 568816003940 Dimerization subdomain; other site 568816003941 uracil transporter; Provisional; Region: PRK10720 568816003942 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 568816003943 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816003944 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 568816003945 putative metal binding site [ion binding]; other site 568816003946 dimer interface [polypeptide binding]; other site 568816003947 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 568816003948 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 568816003949 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 568816003950 DXD motif; other site 568816003951 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 568816003952 catalytic center binding site [active] 568816003953 ATP binding site [chemical binding]; other site 568816003954 dihydropteroate synthase; Region: DHPS; TIGR01496 568816003955 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 568816003956 substrate binding pocket [chemical binding]; other site 568816003957 dimer interface [polypeptide binding]; other site 568816003958 inhibitor binding site; inhibition site 568816003959 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 568816003960 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 568816003961 active site 568816003962 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 568816003963 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 568816003964 Sodium:solute symporter family; Region: SSF; cl00456 568816003965 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816003966 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816003967 Scramblase; Region: Scramblase; cl02043 568816003968 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816003969 Zn2+ binding site [ion binding]; other site 568816003970 Mg2+ binding site [ion binding]; other site 568816003971 Membrane transport protein; Region: Mem_trans; cl09117 568816003972 malate dehydrogenase; Provisional; Region: PRK13529 568816003973 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568816003974 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 568816003975 NAD(P) binding site [chemical binding]; other site 568816003976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003977 Helix-turn-helix domains; Region: HTH; cl00088 568816003978 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816003979 dimerization interface [polypeptide binding]; other site 568816003980 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 568816003981 dimerization interface [polypeptide binding]; other site 568816003982 putative DNA binding site [nucleotide binding]; other site 568816003983 putative Zn2+ binding site [ion binding]; other site 568816003984 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568816003985 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 568816003986 dimer interface [polypeptide binding]; other site 568816003987 active site 568816003988 metal binding site [ion binding]; metal-binding site 568816003989 glutathione binding site [chemical binding]; other site 568816003990 EamA-like transporter family; Region: EamA; cl01037 568816003991 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816003992 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 568816003993 FAD binding domain; Region: FAD_binding_4; pfam01565 568816003994 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 568816003995 Protein of unknown function (DUF964); Region: DUF964; cl01483 568816003996 Helix-turn-helix domains; Region: HTH; cl00088 568816003997 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 568816003998 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 568816003999 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 568816004000 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 568816004001 glutaminase active site [active] 568816004002 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 568816004003 dimer interface [polypeptide binding]; other site 568816004004 active site 568816004005 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 568816004006 dimer interface [polypeptide binding]; other site 568816004007 active site 568816004008 enolase; Provisional; Region: eno; PRK00077 568816004009 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 568816004010 dimer interface [polypeptide binding]; other site 568816004011 metal binding site [ion binding]; metal-binding site 568816004012 substrate binding pocket [chemical binding]; other site 568816004013 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 568816004014 Sulfatase; Region: Sulfatase; cl10460 568816004015 bifunctional phosphoglycerate kinase/triosephosphate isomerase; Provisional; Region: PRK13962 568816004016 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 568816004017 substrate binding site [chemical binding]; other site 568816004018 hinge regions; other site 568816004019 ADP binding site [chemical binding]; other site 568816004020 catalytic site [active] 568816004021 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 568816004022 substrate binding site [chemical binding]; other site 568816004023 dimer interface [polypeptide binding]; other site 568816004024 catalytic triad [active] 568816004025 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 568816004026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004027 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 568816004028 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 568816004029 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 568816004030 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816004031 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816004032 Pirin-related protein [General function prediction only]; Region: COG1741 568816004033 Cupin domain; Region: Cupin_2; cl09118 568816004034 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 568816004035 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816004036 Helix-turn-helix domains; Region: HTH; cl00088 568816004037 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 568816004038 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 568816004039 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 568816004040 active site 568816004041 motif I; other site 568816004042 motif II; other site 568816004043 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 568816004044 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 568816004045 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568816004046 EamA-like transporter family; Region: EamA; cl01037 568816004047 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816004048 EamA-like transporter family; Region: EamA; cl01037 568816004049 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 568816004050 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 568816004051 ATP binding site [chemical binding]; other site 568816004052 putative Mg++ binding site [ion binding]; other site 568816004053 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 568816004054 nucleotide binding region [chemical binding]; other site 568816004055 ATP-binding site [chemical binding]; other site 568816004056 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 568816004057 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 568816004058 FMN binding site [chemical binding]; other site 568816004059 dimer interface [polypeptide binding]; other site 568816004060 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816004061 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 568816004062 FeS/SAM binding site; other site 568816004063 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 568816004064 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 568816004065 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 568816004066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004067 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816004068 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004069 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 568816004070 Flavoprotein; Region: Flavoprotein; cl08021 568816004071 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 568816004072 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 568816004073 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 568816004074 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 568816004075 catalytic site [active] 568816004076 G-X2-G-X-G-K; other site 568816004077 Domain of unknown function (DUF370); Region: DUF370; cl00898 568816004078 hypothetical protein; Provisional; Region: PRK11820 568816004079 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 568816004080 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 568816004081 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 568816004082 Domain of unknown function (DUF814); Region: DUF814; pfam05670 568816004083 putative transposase OrfB; Reviewed; Region: PHA02517 568816004084 HTH-like domain; Region: HTH_21; pfam13276 568816004085 Integrase core domain; Region: rve; cl01316 568816004086 Integrase core domain; Region: rve_3; cl15866 568816004087 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 568816004088 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 568816004089 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 568816004090 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 568816004091 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 568816004092 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 568816004093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004094 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816004095 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004096 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 568816004097 ATP cone domain; Region: ATP-cone; pfam03477 568816004098 cell division protein FtsZ; Validated; Region: PRK09330 568816004099 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 568816004100 nucleotide binding site [chemical binding]; other site 568816004101 SulA interaction site; other site 568816004102 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 568816004103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 568816004104 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 568816004105 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 568816004106 Cell division protein FtsQ; Region: FtsQ; pfam03799 568816004107 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 568816004108 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 568816004109 ATP-grasp domain; Region: ATP-grasp_4; cl03087 568816004110 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 568816004111 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568816004112 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004113 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816004114 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 568816004115 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 568816004116 active site 568816004117 homodimer interface [polypeptide binding]; other site 568816004118 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 568816004119 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004120 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816004121 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 568816004122 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 568816004123 Mg++ binding site [ion binding]; other site 568816004124 putative catalytic motif [active] 568816004125 putative substrate binding site [chemical binding]; other site 568816004126 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568816004127 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 568816004128 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004129 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 568816004130 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568816004131 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004132 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816004133 Septum formation initiator; Region: DivIC; cl11433 568816004134 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 568816004135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004136 cell division protein MraZ; Reviewed; Region: PRK00326 568816004137 MraZ protein; Region: MraZ; pfam02381 568816004138 MraZ protein; Region: MraZ; pfam02381 568816004139 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 568816004140 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 568816004141 galactarate dehydratase; Region: galactar-dH20; TIGR03248 568816004142 SAF domain; Region: SAF; cl00555 568816004143 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 568816004144 biotin synthase; Region: bioB; TIGR00433 568816004145 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 568816004146 FeS/SAM binding site; other site 568816004147 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 568816004148 Haemagglutinin; Region: HIM; pfam05662 568816004149 YadA-like C-terminal region; Region: YadA; pfam03895 568816004150 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 568816004151 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 568816004152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816004153 homodimer interface [polypeptide binding]; other site 568816004154 catalytic residue [active] 568816004155 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816004156 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568816004157 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 568816004158 Walker A/P-loop; other site 568816004159 ATP binding site [chemical binding]; other site 568816004160 Q-loop/lid; other site 568816004161 ABC transporter signature motif; other site 568816004162 Walker B; other site 568816004163 D-loop; other site 568816004164 H-loop/switch region; other site 568816004165 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 568816004166 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568816004167 dimer interface [polypeptide binding]; other site 568816004168 conserved gate region; other site 568816004169 putative PBP binding loops; other site 568816004170 ABC-ATPase subunit interface; other site 568816004171 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 568816004172 dimer interface [polypeptide binding]; other site 568816004173 conserved gate region; other site 568816004174 putative PBP binding loops; other site 568816004175 ABC-ATPase subunit interface; other site 568816004176 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004177 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 568816004178 substrate binding pocket [chemical binding]; other site 568816004179 membrane-bound complex binding site; other site 568816004180 hinge residues; other site 568816004181 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 568816004182 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816004183 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 568816004184 putative dimer interface [polypeptide binding]; other site 568816004185 N-terminal domain interface [polypeptide binding]; other site 568816004186 putative substrate binding pocket (H-site) [chemical binding]; other site 568816004187 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 568816004188 active site 568816004189 metal binding site [ion binding]; metal-binding site 568816004190 homotetramer interface [polypeptide binding]; other site 568816004191 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 568816004192 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 568816004193 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816004194 MatE; Region: MatE; cl10513 568816004195 MatE; Region: MatE; cl10513 568816004196 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816004197 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 568816004198 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 568816004199 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 568816004200 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 568816004201 dimer interface [polypeptide binding]; other site 568816004202 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 568816004203 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 568816004204 Dehydratase family; Region: ILVD_EDD; cl00340 568816004205 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 568816004206 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568816004207 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 568816004208 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 568816004209 TPP-binding site [chemical binding]; other site 568816004210 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 568816004211 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 568816004212 PYR/PP interface [polypeptide binding]; other site 568816004213 TPP binding site [chemical binding]; other site 568816004214 dimer interface [polypeptide binding]; other site 568816004215 substrate binding site [chemical binding]; other site 568816004216 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816004217 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568816004218 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 568816004219 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 568816004220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004221 GntP family permease; Region: GntP_permease; pfam02447 568816004222 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 568816004223 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 568816004224 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 568816004225 active site 568816004226 tetramer interface [polypeptide binding]; other site 568816004227 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 568816004228 Helix-turn-helix domains; Region: HTH; cl00088 568816004229 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816004230 dimerization interface [polypeptide binding]; other site 568816004231 Dehydratase family; Region: ILVD_EDD; cl00340 568816004232 Peptidase C26; Region: Peptidase_C26; pfam07722 568816004233 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 568816004234 conserved cys residue [active] 568816004235 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 568816004236 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 568816004237 active site 568816004238 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 568816004239 putative transposase OrfB; Reviewed; Region: PHA02517 568816004240 HTH-like domain; Region: HTH_21; pfam13276 568816004241 Integrase core domain; Region: rve; cl01316 568816004242 Integrase core domain; Region: rve_3; cl15866 568816004243 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816004244 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 568816004245 Walker A/P-loop; other site 568816004246 ATP binding site [chemical binding]; other site 568816004247 Q-loop/lid; other site 568816004248 ABC transporter signature motif; other site 568816004249 Walker B; other site 568816004250 D-loop; other site 568816004251 H-loop/switch region; other site 568816004252 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 568816004253 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 568816004254 amidohydrolase; Region: amidohydrolases; TIGR01891 568816004255 metal binding site [ion binding]; metal-binding site 568816004256 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 568816004257 16S/18S rRNA binding site [nucleotide binding]; other site 568816004258 S13e-L30e interaction site [polypeptide binding]; other site 568816004259 25S rRNA binding site [nucleotide binding]; other site 568816004260 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 568816004261 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 568816004262 active site 568816004263 Riboflavin kinase; Region: Flavokinase; cl03312 568816004264 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 568816004265 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 568816004266 RNA binding site [nucleotide binding]; other site 568816004267 active site 568816004268 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 568816004269 DHH family; Region: DHH; pfam01368 568816004270 Ribosome-binding factor A; Region: RBFA; cl00542 568816004271 translation initiation factor IF-2; Validated; Region: infB; PRK05306 568816004272 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 568816004273 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 568816004274 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 568816004275 G1 box; other site 568816004276 putative GEF interaction site [polypeptide binding]; other site 568816004277 GTP/Mg2+ binding site [chemical binding]; other site 568816004278 Switch I region; other site 568816004279 G2 box; other site 568816004280 G3 box; other site 568816004281 Switch II region; other site 568816004282 G4 box; other site 568816004283 G5 box; other site 568816004284 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 568816004285 Translation-initiation factor 2; Region: IF-2; pfam11987 568816004286 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 568816004287 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 568816004288 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 568816004289 putative RNA binding cleft [nucleotide binding]; other site 568816004290 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 568816004291 NusA N-terminal domain; Region: NusA_N; pfam08529 568816004292 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 568816004293 RNA binding site [nucleotide binding]; other site 568816004294 homodimer interface [polypeptide binding]; other site 568816004295 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 568816004296 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 568816004297 G-X-X-G motif; other site 568816004298 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 568816004299 ribosome maturation protein RimP; Reviewed; Region: PRK00092 568816004300 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 568816004301 Sm1 motif; other site 568816004302 D1 - D2 interaction site; other site 568816004303 D3 - B interaction site; other site 568816004304 Hfq - Hfq interaction site; other site 568816004305 RNA binding pocket [nucleotide binding]; other site 568816004306 Sm2 motif; other site 568816004307 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 568816004308 Interdomain contacts; other site 568816004309 Cytokine receptor motif; other site 568816004310 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816004311 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 568816004312 active site 568816004313 metal binding site [ion binding]; metal-binding site 568816004314 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 568816004315 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 568816004316 G1 box; other site 568816004317 putative GEF interaction site [polypeptide binding]; other site 568816004318 GTP/Mg2+ binding site [chemical binding]; other site 568816004319 Switch I region; other site 568816004320 G2 box; other site 568816004321 G3 box; other site 568816004322 Switch II region; other site 568816004323 G4 box; other site 568816004324 G5 box; other site 568816004325 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 568816004326 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 568816004327 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 568816004328 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816004329 Beta-Casp domain; Region: Beta-Casp; cl12567 568816004330 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 568816004331 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 568816004332 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816004333 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004334 DNA polymerase III PolC; Validated; Region: polC; PRK00448 568816004335 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 568816004336 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 568816004337 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 568816004338 MgtC family; Region: MgtC; pfam02308 568816004339 prolyl-tRNA synthetase; Provisional; Region: PRK09194 568816004340 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 formation of...; Region: ProRS_core_prok; cd00779 568816004341 dimer interface [polypeptide binding]; other site 568816004342 motif 1; other site 568816004343 active site 568816004344 motif 2; other site 568816004345 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 568816004346 putative deacylase active site [active] 568816004347 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 attaches...; Region: class_II_aaRS-like_core; cl00268 568816004348 active site 568816004349 motif 3; other site 568816004350 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 568816004351 anticodon binding site; other site 568816004352 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 568816004353 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568816004354 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568816004355 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 568816004356 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 568816004357 active site 568816004358 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 568816004359 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 568816004360 putative substrate binding region [chemical binding]; other site 568816004361 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 568816004362 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 568816004363 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 568816004364 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 568816004365 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 568816004366 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 568816004367 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 568816004368 catalytic residue [active] 568816004369 putative FPP diphosphate binding site; other site 568816004370 putative FPP binding hydrophobic cleft; other site 568816004371 dimer interface [polypeptide binding]; other site 568816004372 putative IPP diphosphate binding site; other site 568816004373 ribosome recycling factor; Reviewed; Region: frr; PRK00083 568816004374 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 round of...; Region: RRF; cd00520 568816004375 hinge region; other site 568816004376 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 568816004377 putative nucleotide binding site [chemical binding]; other site 568816004378 uridine monophosphate binding site [chemical binding]; other site 568816004379 homohexameric interface [polypeptide binding]; other site 568816004380 elongation factor Ts; Provisional; Region: tsf; PRK09377 568816004381 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 568816004382 Elongation factor TS; Region: EF_TS; pfam00889 568816004383 Elongation factor TS; Region: EF_TS; pfam00889 568816004384 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 568816004385 rRNA interaction site [nucleotide binding]; other site 568816004386 S8 interaction site; other site 568816004387 putative laminin-1 binding site; other site 568816004388 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 568816004389 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 568816004390 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 568816004391 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816004392 FeS/SAM binding site; other site 568816004393 ribonuclease III; Reviewed; Region: rnc; PRK00102 568816004394 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 568816004395 dimerization interface [polypeptide binding]; other site 568816004396 active site 568816004397 metal binding site [ion binding]; metal-binding site 568816004398 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 568816004399 dsRNA binding site [nucleotide binding]; other site 568816004400 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 568816004401 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 568816004402 dimer interface [polypeptide binding]; other site 568816004403 active site 568816004404 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 568816004405 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 568816004406 FMN binding site [chemical binding]; other site 568816004407 substrate binding site [chemical binding]; other site 568816004408 putative catalytic residue [active] 568816004409 Phosphopantetheine attachment site; Region: PP-binding; cl09936 568816004410 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 568816004411 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 568816004412 NAD(P) binding site [chemical binding]; other site 568816004413 homotetramer interface [polypeptide binding]; other site 568816004414 homodimer interface [polypeptide binding]; other site 568816004415 active site 568816004416 Acyl transferase domain; Region: Acyl_transf_1; cl08282 568816004417 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 568816004418 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 568816004419 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 568816004420 dimer interface [polypeptide binding]; other site 568816004421 active site 568816004422 CoA binding pocket [chemical binding]; other site 568816004423 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 568816004424 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 568816004425 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 568816004426 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 568816004427 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 568816004428 Acetokinase family; Region: Acetate_kinase; cl01029 568816004429 propionate/acetate kinase; Provisional; Region: PRK12379 568816004430 hypothetical protein; Provisional; Region: PRK13670 568816004431 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816004432 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 568816004433 FeS/SAM binding site; other site 568816004434 Plant ATP synthase F0; Region: YMF19; cl07975 568816004435 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 568816004436 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 568816004437 (T/H)XGH motif; other site 568816004438 active site 568816004439 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 568816004440 S-adenosylmethionine binding site [chemical binding]; other site 568816004441 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 568816004442 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 568816004443 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816004444 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 568816004445 catalytic residue [active] 568816004446 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816004447 peroxiredoxin; Region: AhpC; TIGR03137 568816004448 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 568816004449 dimer interface [polypeptide binding]; other site 568816004450 decamer (pentamer of dimers) interface [polypeptide binding]; other site 568816004451 catalytic triad [active] 568816004452 peroxidatic and resolving cysteines [active] 568816004453 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816004454 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004455 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004456 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; cl12031 568816004457 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568816004458 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; cl12031 568816004459 GatB domain; Region: GatB_Yqey; cl11497 568816004460 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 568816004461 nucleotide binding site/active site [active] 568816004462 HIT family signature motif; other site 568816004463 catalytic residue [active] 568816004464 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568816004465 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 568816004466 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 568816004467 FeS/SAM binding site; other site 568816004468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 568816004469 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 568816004470 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 568816004471 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 568816004472 S-adenosylmethionine binding site [chemical binding]; other site 568816004473 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 568816004474 Cation transport protein; Region: TrkH; cl10514 568816004475 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 568816004476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004477 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; cl15357 568816004478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004479 OpgC protein; Region: OpgC_C; cl00792 568816004480 Acyltransferase family; Region: Acyl_transf_3; pfam01757 568816004481 Membrane transport protein; Region: Mem_trans; cl09117 568816004482 pyruvate kinase; Provisional; Region: PRK06354 568816004483 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; cl09155 568816004484 domain interfaces; other site 568816004485 active site 568816004486 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 568816004487 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 568816004488 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 568816004489 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 568816004490 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 568816004491 Electron transfer flavoprotein domain; Region: ETF; pfam01012 568816004492 Ligand binding site [chemical binding]; other site 568816004493 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 568816004494 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 568816004495 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 568816004496 generic binding surface II; other site 568816004497 generic binding surface I; other site 568816004498 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 568816004499 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 568816004500 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816004501 Protein of unknown function DUF45; Region: DUF45; cl00636 568816004502 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 568816004503 Domain of unknown function DUF21; Region: DUF21; pfam01595 568816004504 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 568816004505 Transporter associated domain; Region: CorC_HlyC; cl08393 568816004506 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568816004507 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 568816004508 motif II; other site 568816004509 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 568816004510 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 568816004511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004512 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004513 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 568816004514 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 568816004515 Cl- selectivity filter; other site 568816004516 Cl- binding residues [ion binding]; other site 568816004517 pore gating glutamate residue; other site 568816004518 dimer interface [polypeptide binding]; other site 568816004519 H+/Cl- coupling transport residue; other site 568816004520 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; cl15357 568816004521 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 568816004522 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 568816004523 active site 568816004524 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816004525 substrate binding site [chemical binding]; other site 568816004526 catalytic residues [active] 568816004527 dimer interface [polypeptide binding]; other site 568816004528 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 568816004529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816004530 Walker A/P-loop; other site 568816004531 ATP binding site [chemical binding]; other site 568816004532 Q-loop/lid; other site 568816004533 ABC transporter signature motif; other site 568816004534 Walker B; other site 568816004535 D-loop; other site 568816004536 H-loop/switch region; other site 568816004537 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 568816004538 TM-ABC transporter signature motif; other site 568816004539 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 568816004540 zinc binding site [ion binding]; other site 568816004541 putative ligand binding site [chemical binding]; other site 568816004542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004543 Peptidase family M48; Region: Peptidase_M48; cl12018 568816004544 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 568816004545 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 568816004546 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 568816004547 active site 568816004548 metal binding site [ion binding]; metal-binding site 568816004549 DNA binding site [nucleotide binding] 568816004550 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 568816004551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816004552 Walker A/P-loop; other site 568816004553 ATP binding site [chemical binding]; other site 568816004554 Q-loop/lid; other site 568816004555 exonuclease SbcC; Region: sbcc; TIGR00618 568816004556 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 568816004557 ABC transporter signature motif; other site 568816004558 Walker B; other site 568816004559 D-loop; other site 568816004560 H-loop/switch region; other site 568816004561 chaperone protein HchA; Provisional; Region: PRK04155 568816004562 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 568816004563 conserved cys residue [active] 568816004564 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816004565 Helix-turn-helix domains; Region: HTH; cl00088 568816004566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816004567 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 568816004568 dimerization interface [polypeptide binding]; other site 568816004569 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 568816004570 dimer interface [polypeptide binding]; other site 568816004571 phosphorylation site [posttranslational modification] 568816004572 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 568816004573 ATP binding site [chemical binding]; other site 568816004574 Mg2+ binding site [ion binding]; other site 568816004575 G-X-G motif; other site 568816004576 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816004577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816004578 active site 568816004579 phosphorylation site [posttranslational modification] 568816004580 intermolecular recognition site; other site 568816004581 dimerization interface [polypeptide binding]; other site 568816004582 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 568816004583 DNA binding site [nucleotide binding] 568816004584 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 568816004585 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 568816004586 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816004587 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 568816004588 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 568816004589 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 568816004590 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 568816004591 MgtE intracellular N domain; Region: MgtE_N; cl15244 568816004592 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 568816004593 Divalent cation transporter; Region: MgtE; cl00786 568816004594 PUA domain; Region: PUA; cl00607 568816004595 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 568816004596 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 568816004597 S-adenosylmethionine binding site [chemical binding]; other site 568816004598 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816004599 MatE; Region: MatE; cl10513 568816004600 MatE; Region: MatE; cl10513 568816004601 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816004602 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816004603 NeuB family; Region: NeuB; cl00496 568816004604 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 568816004605 NMT1-like family; Region: NMT1_2; cl15260 568816004606 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 568816004607 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568816004608 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 568816004609 putative NAD(P) binding site [chemical binding]; other site 568816004610 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 568816004611 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816004612 active site 568816004613 metal binding site [ion binding]; metal-binding site 568816004614 homotetramer interface [polypeptide binding]; other site 568816004615 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 568816004616 active site 568816004617 dimerization interface [polypeptide binding]; other site 568816004618 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 568816004619 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 568816004620 active site 568816004621 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 568816004622 endonuclease IV; Provisional; Region: PRK01060 568816004623 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 568816004624 AP (apurinic/apyrimidinic) site pocket; other site 568816004625 DNA interaction; other site 568816004626 Metal-binding active site; metal-binding site 568816004627 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 568816004628 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 568816004629 ATP binding site [chemical binding]; other site 568816004630 Mg2+ binding site [ion binding]; other site 568816004631 G-X-G motif; other site 568816004632 Response regulator receiver domain; Region: Response_reg; pfam00072 568816004633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816004634 active site 568816004635 phosphorylation site [posttranslational modification] 568816004636 intermolecular recognition site; other site 568816004637 dimerization interface [polypeptide binding]; other site 568816004638 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 568816004639 C-terminal peptidase (prc); Region: prc; TIGR00225 568816004640 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 568816004641 protein binding site [polypeptide binding]; other site 568816004642 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 568816004643 Catalytic dyad [active] 568816004644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 568816004645 Peptidase family M23; Region: Peptidase_M23; pfam01551 568816004646 FtsX-like permease family; Region: FtsX; cl15850 568816004647 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 568816004648 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 568816004649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816004650 Walker A/P-loop; other site 568816004651 ATP binding site [chemical binding]; other site 568816004652 Q-loop/lid; other site 568816004653 ABC transporter signature motif; other site 568816004654 Walker B; other site 568816004655 D-loop; other site 568816004656 H-loop/switch region; other site 568816004657 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 568816004658 peptide chain release factor 2; Validated; Region: prfB; PRK00578 568816004659 RF-1 domain; Region: RF-1; cl02875 568816004660 RF-1 domain; Region: RF-1; cl02875 568816004661 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 568816004662 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816004663 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 568816004664 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 568816004665 nucleotide binding region [chemical binding]; other site 568816004666 ATP-binding site [chemical binding]; other site 568816004667 SEC-C motif; Region: SEC-C; pfam02810 568816004668 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 A site; Region: RaiA; cd00552 568816004669 30S subunit binding site; other site 568816004670 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568816004671 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 568816004672 Walker A/P-loop; other site 568816004673 ATP binding site [chemical binding]; other site 568816004674 Q-loop/lid; other site 568816004675 ABC transporter signature motif; other site 568816004676 Walker B; other site 568816004677 D-loop; other site 568816004678 H-loop/switch region; other site 568816004679 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568816004680 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 568816004681 dimer interface [polypeptide binding]; other site 568816004682 conserved gate region; other site 568816004683 putative PBP binding loops; other site 568816004684 ABC-ATPase subunit interface; other site 568816004685 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004686 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 568816004687 substrate binding pocket [chemical binding]; other site 568816004688 membrane-bound complex binding site; other site 568816004689 hinge residues; other site 568816004690 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004691 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 568816004692 substrate binding pocket [chemical binding]; other site 568816004693 membrane-bound complex binding site; other site 568816004694 hinge residues; other site 568816004695 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004696 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 568816004697 substrate binding pocket [chemical binding]; other site 568816004698 membrane-bound complex binding site; other site 568816004699 hinge residues; other site 568816004700 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816004701 Zn2+ binding site [ion binding]; other site 568816004702 Mg2+ binding site [ion binding]; other site 568816004703 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 568816004704 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 568816004705 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816004706 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 568816004707 Protein of unknown function (DUF805); Region: DUF805; cl01224 568816004708 Haemagglutinin; Region: HIM; pfam05662 568816004709 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 568816004710 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 568816004711 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 568816004712 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; cl15357 568816004713 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 568816004714 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 568816004715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004716 Helix-turn-helix domains; Region: HTH; cl00088 568816004717 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816004718 dimerization interface [polypeptide binding]; other site 568816004719 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 568816004720 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 568816004721 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004722 Helix-turn-helix domains; Region: HTH; cl00088 568816004723 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816004724 dimerization interface [polypeptide binding]; other site 568816004725 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816004726 short chain dehydrogenase; Provisional; Region: PRK06180 568816004727 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 568816004728 NADP binding site [chemical binding]; other site 568816004729 active site 568816004730 steroid binding site; other site 568816004731 short chain dehydrogenase; Provisional; Region: PRK06180 568816004732 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 568816004733 NADP binding site [chemical binding]; other site 568816004734 active site 568816004735 steroid binding site; other site 568816004736 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 568816004737 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 568816004738 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; cl12031 568816004739 substrate binding pocket [chemical binding]; other site 568816004740 catalytic triad [active] 568816004741 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816004742 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816004743 dimer interface [polypeptide binding]; other site 568816004744 active site 568816004745 metal binding site [ion binding]; metal-binding site 568816004746 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816004747 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568816004748 Membrane transport protein; Region: Mem_trans; cl09117 568816004749 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568816004750 Cupin domain; Region: Cupin_2; cl09118 568816004751 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816004752 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 568816004753 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 568816004754 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 568816004755 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 568816004756 DNA binding residues [nucleotide binding] 568816004757 putative dimer interface [polypeptide binding]; other site 568816004758 hypothetical protein; Validated; Region: PRK06201 568816004759 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 568816004760 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 568816004761 Helix-turn-helix domains; Region: HTH; cl00088 568816004762 3H domain; Region: 3H; pfam02829 568816004763 putative efflux protein, MATE family; Region: matE; TIGR00797 568816004764 MatE; Region: MatE; cl10513 568816004765 MatE; Region: MatE; cl10513 568816004766 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004767 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004768 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004769 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 568816004770 substrate binding pocket [chemical binding]; other site 568816004771 membrane-bound complex binding site; other site 568816004772 hinge residues; other site 568816004773 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 568816004774 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 568816004775 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 568816004776 active site 568816004777 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 568816004778 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 568816004779 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 568816004780 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 568816004781 putative acyl-acceptor binding pocket; other site 568816004782 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 568816004783 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 568816004784 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 568816004785 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 568816004786 trimer interface [polypeptide binding]; other site 568816004787 active site 568816004788 UDP-GlcNAc binding site [chemical binding]; other site 568816004789 lipid binding site [chemical binding]; lipid-binding site 568816004790 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 568816004791 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 568816004792 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 568816004793 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 568816004794 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 568816004795 Surface antigen; Region: Bac_surface_Ag; cl03097 568816004796 AsmA-like C-terminal region; Region: AsmA_2; cl15864 568816004797 AsmA-like C-terminal region; Region: AsmA_2; cl15864 568816004798 AsmA-like C-terminal region; Region: AsmA_2; cl15864 568816004799 AsmA-like C-terminal region; Region: AsmA_2; cl15864 568816004800 Family of unknown function (DUF490); Region: DUF490; pfam04357 568816004801 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 568816004802 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 568816004803 mce related protein; Region: MCE; pfam02470 568816004804 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 568816004805 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 568816004806 Walker A/P-loop; other site 568816004807 ATP binding site [chemical binding]; other site 568816004808 Q-loop/lid; other site 568816004809 ABC transporter signature motif; other site 568816004810 Walker B; other site 568816004811 D-loop; other site 568816004812 H-loop/switch region; other site 568816004813 Permease; Region: Permease; cl00510 568816004814 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 568816004815 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 568816004816 E3 interaction surface; other site 568816004817 AMIN domain; Region: AMIN; pfam11741 568816004818 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 568816004819 Predicted periplasmic protein [Function unknown]; Region: COG3698 568816004820 rod shape-determining protein MreB; Provisional; Region: PRK13930 568816004821 Cell division protein FtsA; Region: FtsA; cl11496 568816004822 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 568816004823 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 568816004824 hinge; other site 568816004825 active site 568816004826 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 568816004827 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 568816004828 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 568816004829 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 568816004830 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 568816004831 alpha subunit interaction interface [polypeptide binding]; other site 568816004832 Walker A motif; other site 568816004833 ATP binding site [chemical binding]; other site 568816004834 Walker B motif; other site 568816004835 inhibitor binding site; inhibition site 568816004836 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816004837 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 568816004838 ATP synthase; Region: ATP-synt; cl00365 568816004839 Plant ATP synthase F0; Region: YMF19; cl07975 568816004840 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 568816004841 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 568816004842 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 568816004843 beta subunit interaction interface [polypeptide binding]; other site 568816004844 Walker A motif; other site 568816004845 ATP binding site [chemical binding]; other site 568816004846 Walker B motif; other site 568816004847 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816004848 Plant ATP synthase F0; Region: YMF19; cl07975 568816004849 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 568816004850 ATP synthase subunit C; Region: ATP-synt_C; cl00466 568816004851 ATP synthase A chain; Region: ATP-synt_A; cl00413 568816004852 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 568816004853 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 568816004854 active site 568816004855 homodimer interface [polypeptide binding]; other site 568816004856 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 568816004857 putative catalytic motif [active] 568816004858 substrate binding site [chemical binding]; other site 568816004859 Chromate transporter; Region: Chromate_transp; pfam02417 568816004860 Chromate transporter; Region: Chromate_transp; pfam02417 568816004861 multidrug efflux protein; Reviewed; Region: PRK01766 568816004862 MatE; Region: MatE; cl10513 568816004863 MatE; Region: MatE; cl10513 568816004864 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 568816004865 Sulfatase; Region: Sulfatase; cl10460 568816004866 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 568816004867 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 568816004868 GtrA-like protein; Region: GtrA; cl00971 568816004869 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 568816004870 recombination protein RecR; Reviewed; Region: recR; PRK00076 568816004871 RecR protein; Region: RecR; pfam02132 568816004872 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 568816004873 putative active site [active] 568816004874 putative metal-binding site [ion binding]; other site 568816004875 tetramer interface [polypeptide binding]; other site 568816004876 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 568816004877 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 568816004878 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 568816004879 Walker A motif; other site 568816004880 ATP binding site [chemical binding]; other site 568816004881 Walker B motif; other site 568816004882 arginine finger; other site 568816004883 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 568816004884 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 568816004885 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568816004886 FAD binding domain; Region: FAD_binding_4; pfam01565 568816004887 alanine racemase; Reviewed; Region: alr; PRK00053 568816004888 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 568816004889 active site 568816004890 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816004891 dimer interface [polypeptide binding]; other site 568816004892 substrate binding site [chemical binding]; other site 568816004893 catalytic residues [active] 568816004894 Homoserine O-succinyltransferase; Region: HTS; pfam04204 568816004895 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 568816004896 proposed active site lysine [active] 568816004897 conserved cys residue [active] 568816004898 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 568816004899 nucleoside/Zn binding site; other site 568816004900 dimer interface [polypeptide binding]; other site 568816004901 catalytic motif [active] 568816004902 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 568816004903 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 568816004904 active site 568816004905 DNA binding site [nucleotide binding] 568816004906 Int/Topo IB signature motif; other site 568816004907 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 568816004908 crystallin beta/gamma motif-containing protein; Region: PHA00657 568816004909 crystallin beta/gamma motif-containing protein; Region: PHA00657 568816004910 hypothetical protein; Region: PHA00661 568816004911 hypothetical protein; Region: PHA00661 568816004912 hypothetical protein; Region: PHA00662 568816004913 major capsid protein; Region: PHA00665 568816004914 putative protease; Region: PHA00666 568816004915 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 568816004916 large terminase protein; Provisional; Region: 17; PHA02533 568816004917 acyl-CoA oxidase; Region: PLN02312 568816004918 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 568816004919 oligomerisation interface [polypeptide binding]; other site 568816004920 roof hairpin; other site 568816004921 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816004922 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 568816004923 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 568816004924 ATP binding site [chemical binding]; other site 568816004925 putative Mg++ binding site [ion binding]; other site 568816004926 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 568816004927 nucleotide binding region [chemical binding]; other site 568816004928 ATP-binding site [chemical binding]; other site 568816004929 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 568816004930 trimer interface [polypeptide binding]; other site 568816004931 active site 568816004932 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 568816004933 hypothetical protein; Validated; Region: PRK07078 568816004934 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 568816004935 active site 568816004936 metal binding site [ion binding]; metal-binding site 568816004937 interdomain interaction site; other site 568816004938 Domain of unknown function (DUF927); Region: DUF927; cl12098 568816004939 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 568816004940 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 568816004941 putative peptidoglycan binding site; other site 568816004942 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 568816004943 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 568816004944 Int/Topo IB signature motif; other site 568816004945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004946 Helix-turn-helix domains; Region: HTH; cl00088 568816004947 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816004948 dimerization interface [polypeptide binding]; other site 568816004949 Chromate transporter; Region: Chromate_transp; pfam02417 568816004950 Chromate transporter; Region: Chromate_transp; pfam02417 568816004951 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 568816004952 4Fe-4S binding domain; Region: Fer4; cl02805 568816004953 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 568816004954 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 568816004955 ligand binding site [chemical binding]; other site 568816004956 flexible hinge region; other site 568816004957 Helix-turn-helix domains; Region: HTH; cl00088 568816004958 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 568816004959 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816004960 putative active site [active] 568816004961 putative metal binding site [ion binding]; other site 568816004962 CrcB-like protein; Region: CRCB; cl09114 568816004963 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 568816004964 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 568816004965 S-adenosylmethionine binding site [chemical binding]; other site 568816004966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004967 NAD(P) binding site [chemical binding]; other site 568816004968 active site 568816004969 transcriptional regulator SlyA; Provisional; Region: PRK03573 568816004970 Transposase [DNA replication, recombination, and repair]; Region: COG5421 568816004971 TIGR04076 family protein; Region: TIGR04076 568816004972 Haemagglutinin; Region: HIM; pfam05662 568816004973 Haemagglutinin; Region: HIM; pfam05662 568816004974 S-layer homology domain; Region: SLH; pfam00395 568816004975 flagellin; Validated; Region: PRK08026 568816004976 Haemagglutinin; Region: HIM; pfam05662 568816004977 YadA-like C-terminal region; Region: YadA; pfam03895 568816004978 S-layer homology domain; Region: SLH; pfam00395 568816004979 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816004980 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 568816004981 catalytic residues [active] 568816004982 catalytic nucleophile [active] 568816004983 Recombinase; Region: Recombinase; pfam07508 568816004984 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816004985 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 568816004986 catalytic residues [active] 568816004987 catalytic nucleophile [active] 568816004988 Recombinase; Region: Recombinase; pfam07508 568816004989 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816004990 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816004991 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816004992 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 568816004993 active site 568816004994 DNA binding site [nucleotide binding] 568816004995 catalytic site [active] 568816004996 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 568816004997 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 568816004998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816004999 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 568816005000 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816005001 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 568816005002 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 568816005003 active site 568816005004 metal binding site [ion binding]; metal-binding site 568816005005 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 568816005006 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 568816005007 FeS/SAM binding site; other site 568816005008 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 568816005009 Hint domain; Region: Hint_2; pfam13403 568816005010 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 568816005011 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 568816005012 Phage tail protein; Region: Sipho_tail; pfam05709 568816005013 Phage-related protein [Function unknown]; Region: COG4722; cl15832 568816005014 Mu-like prophage protein [General function prediction only]; Region: COG3941 568816005015 tape measure domain; Region: tape_meas_nterm; TIGR02675 568816005016 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 568816005017 Phage major tail protein 2; Region: Phage_tail_2; cl11463 568816005018 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 568816005019 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 568816005020 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 568816005021 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 568816005022 oligomerization interface [polypeptide binding]; other site 568816005023 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 568816005024 Phage capsid family; Region: Phage_capsid; pfam05065 568816005025 Clp protease; Region: CLP_protease; pfam00574 568816005026 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 568816005027 oligomer interface [polypeptide binding]; other site 568816005028 active site residues [active] 568816005029 Phage-related protein [Function unknown]; Region: COG4695; cl01923 568816005030 Phage portal protein; Region: Phage_portal; pfam04860 568816005031 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 568816005032 non-specific DNA binding site [nucleotide binding]; other site 568816005033 salt bridge; other site 568816005034 sequence-specific DNA binding site [nucleotide binding]; other site 568816005035 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 568816005036 Phage Terminase; Region: Terminase_1; pfam03354 568816005037 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 568816005038 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 568816005039 ParB-like nuclease domain; Region: ParBc; cl02129 568816005040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005041 Phage terminase, small subunit; Region: Terminase_4; cl01525 568816005042 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816005043 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 568816005044 nucleotide binding region [chemical binding]; other site 568816005045 ATP-binding site [chemical binding]; other site 568816005046 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 568816005047 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 568816005048 D5 N terminal like; Region: D5_N; cl07360 568816005049 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 568816005050 BRO family, N-terminal domain; Region: Bro-N; cl10591 568816005051 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 568816005052 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816005053 AAA domain; Region: AAA_13; pfam13166 568816005054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816005055 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816005056 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 568816005057 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 568816005058 putative trimer interface [polypeptide binding]; other site 568816005059 putative CoA binding site [chemical binding]; other site 568816005060 YadA-like C-terminal region; Region: YadA; pfam03895 568816005061 S-layer homology domain; Region: SLH; pfam00395 568816005062 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816005063 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 568816005064 catalytic residues [active] 568816005065 catalytic nucleophile [active] 568816005066 Recombinase; Region: Recombinase; pfam07508 568816005067 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005068 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]; Region: COG4026 568816005069 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 568816005070 catalytic residues [active] 568816005071 catalytic nucleophile [active] 568816005072 Recombinase; Region: Recombinase; pfam07508 568816005073 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005074 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005075 Domain of unknown function (DUF329); Region: DUF329; cl01144 568816005076 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 568816005077 active site 568816005078 metal binding site [ion binding]; metal-binding site 568816005079 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 568816005080 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 568816005081 Baseplate J-like protein; Region: Baseplate_J; cl01294 568816005082 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 568816005083 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 568816005084 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 568816005085 Phage-related protein [Function unknown]; Region: COG5412 568816005086 Phage XkdN-like protein; Region: XkdN; pfam08890 568816005087 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 568816005088 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 568816005089 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 568816005090 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 568816005091 oligomerization interface [polypeptide binding]; other site 568816005092 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 568816005093 Phage capsid family; Region: Phage_capsid; pfam05065 568816005094 Clp protease; Region: CLP_protease; pfam00574 568816005095 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 568816005096 oligomer interface [polypeptide binding]; other site 568816005097 active site residues [active] 568816005098 Phage-related protein [Function unknown]; Region: COG4695; cl01923 568816005099 Phage portal protein; Region: Phage_portal; pfam04860 568816005100 Leucine carboxyl methyltransferase; Region: LCM; cl01306 568816005101 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 568816005102 Phage Terminase; Region: Terminase_1; pfam03354 568816005103 Phage terminase, small subunit; Region: Terminase_4; cl01525 568816005104 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 568816005105 putative active site pocket [active] 568816005106 dimerization interface [polypeptide binding]; other site 568816005107 putative catalytic residue [active] 568816005108 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 568816005109 ParB-like nuclease domain; Region: ParBc; cl02129 568816005110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005111 Helix-turn-helix domains; Region: HTH; cl00088 568816005112 Abi-like protein; Region: Abi_2; cl01988 568816005113 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 568816005114 Restriction endonuclease; Region: Mrr_cat; cl00516 568816005115 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 568816005116 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816005117 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 568816005118 ATP binding site [chemical binding]; other site 568816005119 putative Mg++ binding site [ion binding]; other site 568816005120 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 568816005121 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 568816005122 Phage associated DNA primase [General function prediction only]; Region: COG3378 568816005123 D5 N terminal like; Region: D5_N; cl07360 568816005124 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 568816005125 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 568816005126 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 568816005127 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 568816005128 active site 568816005129 DNA binding site [nucleotide binding] 568816005130 catalytic site [active] 568816005131 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 568816005132 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 568816005133 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 568816005134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816005135 AAA domain; Region: AAA_23; pfam13476 568816005136 Walker A/P-loop; other site 568816005137 ATP binding site [chemical binding]; other site 568816005138 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 568816005139 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 568816005140 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; cd00322 568816005141 FAD binding pocket [chemical binding]; other site 568816005142 conserved FAD binding motif [chemical binding]; other site 568816005143 phosphate binding motif [ion binding]; other site 568816005144 beta-alpha-beta structure motif; other site 568816005145 NAD binding pocket [chemical binding]; other site 568816005146 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 568816005147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816005148 Family description; Region: UvrD_C_2; cl15862 568816005149 Helix-turn-helix domains; Region: HTH; cl00088 568816005150 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 568816005151 NADH(P)-binding; Region: NAD_binding_10; pfam13460 568816005152 NAD binding site [chemical binding]; other site 568816005153 substrate binding site [chemical binding]; other site 568816005154 putative active site [active] 568816005155 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568816005156 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 568816005157 motif II; other site 568816005158 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005159 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005160 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 568816005161 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005162 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 568816005163 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005164 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005165 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568816005166 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 568816005167 motif II; other site 568816005168 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 568816005169 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005170 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005171 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 568816005172 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 568816005173 binding surface 568816005174 TPR motif; other site 568816005175 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005176 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005177 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816005178 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816005179 dimer interface [polypeptide binding]; other site 568816005180 active site 568816005181 metal binding site [ion binding]; metal-binding site 568816005182 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 568816005183 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 568816005184 Walker A motif; other site 568816005185 ATP binding site [chemical binding]; other site 568816005186 Walker B motif; other site 568816005187 arginine finger; other site 568816005188 Helix-turn-helix domains; Region: HTH; cl00088 568816005189 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 568816005190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568816005191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816005192 BCCT family transporter; Region: BCCT; cl00569 568816005193 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 568816005194 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 568816005195 FeS/SAM binding site; other site 568816005196 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 568816005197 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 568816005198 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 568816005199 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 568816005200 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005201 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005202 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005203 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 568816005204 binding surface 568816005205 TPR motif; other site 568816005206 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005207 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816005208 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816005209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005210 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 568816005211 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816005212 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 568816005213 dimer interface [polypeptide binding]; other site 568816005214 PYR/PP interface [polypeptide binding]; other site 568816005215 TPP binding site [chemical binding]; other site 568816005216 substrate binding site [chemical binding]; other site 568816005217 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568816005218 Domain of unknown function; Region: EKR; cl11037 568816005219 4Fe-4S binding domain; Region: Fer4; cl02805 568816005220 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 568816005221 TPP-binding site [chemical binding]; other site 568816005222 dimer interface [polypeptide binding]; other site 568816005223 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 568816005224 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568816005225 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 568816005226 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 568816005227 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 568816005228 FAD binding pocket [chemical binding]; other site 568816005229 FAD binding motif [chemical binding]; other site 568816005230 phosphate binding motif [ion binding]; other site 568816005231 beta-alpha-beta structure motif; other site 568816005232 NAD binding pocket [chemical binding]; other site 568816005233 Iron coordination center [ion binding]; other site 568816005234 putative oxidoreductase; Provisional; Region: PRK12831 568816005235 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 568816005236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816005238 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 568816005239 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 568816005240 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816005241 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 568816005242 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 568816005243 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 568816005244 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 568816005245 sensory histidine kinase CreC; Provisional; Region: PRK11100 568816005246 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 568816005247 dimer interface [polypeptide binding]; other site 568816005248 phosphorylation site [posttranslational modification] 568816005249 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 568816005250 ATP binding site [chemical binding]; other site 568816005251 Mg2+ binding site [ion binding]; other site 568816005252 G-X-G motif; other site 568816005253 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816005254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816005255 active site 568816005256 phosphorylation site [posttranslational modification] 568816005257 intermolecular recognition site; other site 568816005258 dimerization interface [polypeptide binding]; other site 568816005259 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 568816005260 DNA binding site [nucleotide binding] 568816005261 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 568816005262 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 568816005263 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 568816005264 Isochorismatase family; Region: Isochorismatase; pfam00857 568816005265 catalytic triad [active] 568816005266 conserved cis-peptide bond; other site 568816005267 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 568816005268 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 568816005269 active site 568816005270 catalytic tetrad [active] 568816005271 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 568816005272 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 568816005273 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 568816005274 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 568816005275 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 568816005276 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816005277 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816005278 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 568816005279 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 568816005280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005281 homodimer interface [polypeptide binding]; other site 568816005282 catalytic residue [active] 568816005283 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 568816005284 homotrimer interaction site [polypeptide binding]; other site 568816005285 putative active site [active] 568816005286 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568816005287 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 568816005288 non-specific DNA binding site [nucleotide binding]; other site 568816005289 salt bridge; other site 568816005290 sequence-specific DNA binding site [nucleotide binding]; other site 568816005291 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816005292 DNA binding residues [nucleotide binding] 568816005293 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816005294 DNA binding residues [nucleotide binding] 568816005295 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816005296 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816005297 DNA binding residues [nucleotide binding] 568816005298 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 568816005299 HutP; Region: HutP; cl07944 568816005300 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 568816005301 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 568816005302 dimer interface [polypeptide binding]; other site 568816005303 putative radical transfer pathway; other site 568816005304 diiron center [ion binding]; other site 568816005305 tyrosyl radical; other site 568816005306 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 568816005307 ATP cone domain; Region: ATP-cone; pfam03477 568816005308 Class I ribonucleotide reductase; Region: RNR_I; cd01679 568816005309 active site 568816005310 dimer interface [polypeptide binding]; other site 568816005311 catalytic residues [active] 568816005312 effector binding site; other site 568816005313 R2 peptide binding site; other site 568816005314 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 568816005315 active site 568816005316 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 568816005317 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 568816005318 DHHA2 domain; Region: DHHA2; pfam02833 568816005319 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 568816005320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 568816005322 YbbR-like protein; Region: YbbR; pfam07949 568816005323 Uncharacterized conserved protein [Function unknown]; Region: COG1624 568816005324 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 568816005325 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005326 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816005327 metal binding site [ion binding]; metal-binding site 568816005328 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816005329 argininosuccinate lyase; Provisional; Region: PRK00855 568816005330 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 568816005331 active sites [active] 568816005332 tetramer interface [polypeptide binding]; other site 568816005333 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 568816005334 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 568816005335 ANP binding site [chemical binding]; other site 568816005336 Substrate Binding Site II [chemical binding]; other site 568816005337 Substrate Binding Site I [chemical binding]; other site 568816005338 ornithine carbamoyltransferase; Provisional; Region: PRK00779 568816005339 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568816005340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005341 acetylornithine aminotransferase; Provisional; Region: PRK02627 568816005342 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 568816005343 inhibitor-cofactor binding pocket; inhibition site 568816005344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005345 catalytic residue [active] 568816005346 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 568816005347 feedback inhibition sensing region; other site 568816005348 homohexameric interface [polypeptide binding]; other site 568816005349 nucleotide binding site [chemical binding]; other site 568816005350 N-acetyl-L-glutamate binding site [chemical binding]; other site 568816005351 Transglycosylase; Region: Transgly; cl07896 568816005352 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 568816005353 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 568816005354 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 568816005355 dimer interface [polypeptide binding]; other site 568816005356 active site 568816005357 WYL domain; Region: WYL; cl14852 568816005358 HTH-like domain; Region: HTH_21; pfam13276 568816005359 Integrase core domain; Region: rve; cl01316 568816005360 Integrase core domain; Region: rve_3; cl15866 568816005361 HIRAN domain; Region: HIRAN; cl07418 568816005362 allantoate amidohydrolase; Reviewed; Region: PRK09290 568816005363 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 568816005364 active site 568816005365 metal binding site [ion binding]; metal-binding site 568816005366 dimer interface [polypeptide binding]; other site 568816005367 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 568816005368 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 catalyze...; Region: LT_GEWL; cd00254 568816005369 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568816005370 catalytic residue [active] 568816005371 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 568816005372 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 568816005373 CoA-binding site [chemical binding]; other site 568816005374 ATP-binding [chemical binding]; other site 568816005375 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 568816005376 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 568816005377 DNA binding site [nucleotide binding] 568816005378 catalytic residue [active] 568816005379 H2TH interface [polypeptide binding]; other site 568816005380 putative catalytic residues [active] 568816005381 turnover-facilitating residue; other site 568816005382 intercalation triad [nucleotide binding]; other site 568816005383 8OG recognition residue [nucleotide binding]; other site 568816005384 putative reading head residues; other site 568816005385 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 568816005386 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 568816005387 DNA polymerase I; Provisional; Region: PRK05755 568816005388 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 568816005389 active site 568816005390 metal binding site 1 [ion binding]; metal-binding site 568816005391 putative 5' ssDNA interaction site; other site 568816005392 metal binding site 3; metal-binding site 568816005393 metal binding site 2 [ion binding]; metal-binding site 568816005394 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 568816005395 putative DNA binding site [nucleotide binding]; other site 568816005396 putative metal binding site [ion binding]; other site 568816005397 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 568816005398 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 568816005399 active site 568816005400 DNA binding site [nucleotide binding] 568816005401 catalytic site [active] 568816005402 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 568816005403 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 568816005404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005405 homodimer interface [polypeptide binding]; other site 568816005406 catalytic residue [active] 568816005407 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 568816005408 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816005409 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816005410 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 568816005411 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 568816005412 Membrane transport protein; Region: Mem_trans; cl09117 568816005413 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 568816005414 dimerization interface [polypeptide binding]; other site 568816005415 putative DNA binding site [nucleotide binding]; other site 568816005416 putative Zn2+ binding site [ion binding]; other site 568816005417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816005418 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 568816005419 metal ion-dependent adhesion site (MIDAS); other site 568816005420 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 568816005421 thiS-thiF/thiG interaction site; other site 568816005422 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 568816005423 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 568816005424 putative ATP binding site [chemical binding]; other site 568816005425 putative substrate interface [chemical binding]; other site 568816005426 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 568816005427 ThiS interaction site; other site 568816005428 putative active site [active] 568816005429 tetramer interface [polypeptide binding]; other site 568816005430 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 568816005431 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 568816005432 FeS/SAM binding site; other site 568816005433 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 568816005434 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 568816005435 thiamine phosphate binding site [chemical binding]; other site 568816005436 active site 568816005437 pyrophosphate binding site [ion binding]; other site 568816005438 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 568816005439 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568816005440 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816005441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005442 Helix-turn-helix domains; Region: HTH; cl00088 568816005443 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816005444 dimerization interface [polypeptide binding]; other site 568816005445 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 568816005446 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 568816005447 NMT1-like family; Region: NMT1_2; cl15260 568816005448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005449 Helix-turn-helix domains; Region: HTH; cl00088 568816005450 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816005451 dimerization interface [polypeptide binding]; other site 568816005452 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 568816005453 DctM-like transporters; Region: DctM; pfam06808 568816005454 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005455 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568816005456 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568816005457 putative metallo-dependent hydrolase; Provisional; Region: PRK12394 568816005458 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 568816005459 active site 568816005460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005461 Helix-turn-helix domains; Region: HTH; cl00088 568816005462 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816005463 dimerization interface [polypeptide binding]; other site 568816005464 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 568816005465 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 568816005466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 568816005467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005468 Predicted dehydrogenase [General function prediction only]; Region: COG0579 568816005469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005470 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 568816005471 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 568816005472 transmembrane helices; other site 568816005473 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 568816005474 Cupin domain; Region: Cupin_2; cl09118 568816005475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816005476 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568816005477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816005478 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 568816005479 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005480 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 568816005481 NMT1-like family; Region: NMT1_2; cl15260 568816005482 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 568816005483 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 568816005484 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 568816005485 N-terminal plug; other site 568816005486 ligand-binding site [chemical binding]; other site 568816005487 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005488 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816005489 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005490 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005491 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816005492 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 568816005493 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 568816005494 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 568816005495 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 568816005496 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 568816005497 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 568816005498 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 568816005499 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 568816005500 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 568816005501 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 568816005502 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 568816005503 G-loop; other site 568816005504 DNA binding site [nucleotide binding] 568816005505 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 568816005506 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; cl04593 568816005507 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 568816005508 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 568816005509 RPB1 interaction site [polypeptide binding]; other site 568816005510 RPB10 interaction site [polypeptide binding]; other site 568816005511 RPB11 interaction site [polypeptide binding]; other site 568816005512 RPB3 interaction site [polypeptide binding]; other site 568816005513 RPB12 interaction site [polypeptide binding]; other site 568816005514 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 568816005515 Sel1 repeat; Region: Sel1; cl02723 568816005516 Sel1 repeat; Region: Sel1; cl02723 568816005517 putative transposase OrfB; Reviewed; Region: PHA02517 568816005518 HTH-like domain; Region: HTH_21; pfam13276 568816005519 Integrase core domain; Region: rve; cl01316 568816005520 Integrase core domain; Region: rve_3; cl15866 568816005521 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 568816005522 Protein of unknown function (DUF464); Region: DUF464; cl01080 568816005523 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 568816005524 EamA-like transporter family; Region: EamA; cl01037 568816005525 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816005526 EamA-like transporter family; Region: EamA; cl01037 568816005527 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 568816005528 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 568816005529 GatB domain; Region: GatB_Yqey; cl11497 568816005530 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568816005531 Amidase; Region: Amidase; cl11426 568816005532 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 568816005533 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 568816005534 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 568816005535 homodimer interface [polypeptide binding]; other site 568816005536 substrate-cofactor binding pocket; other site 568816005537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005538 catalytic residue [active] 568816005539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816005540 Coenzyme A binding pocket [chemical binding]; other site 568816005541 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 568816005542 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 568816005543 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 568816005544 dimer interface [polypeptide binding]; other site 568816005545 motif 1; other site 568816005546 active site 568816005547 motif 2; other site 568816005548 motif 3; other site 568816005549 inner membrane transporter YjeM; Provisional; Region: PRK15238 568816005550 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 568816005551 putative metal binding site; other site 568816005552 Sulfatase; Region: Sulfatase; cl10460 568816005553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816005554 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816005555 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005556 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816005557 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816005558 metal binding site [ion binding]; metal-binding site 568816005559 dimer interface [polypeptide binding]; other site 568816005560 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 568816005561 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 568816005562 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 568816005563 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568816005564 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 568816005565 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 568816005566 DNA binding residues [nucleotide binding] 568816005567 CHC2 zinc finger; Region: zf-CHC2; cl15369 568816005568 DNA primase; Validated; Region: dnaG; PRK05667 568816005569 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 568816005570 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 568816005571 active site 568816005572 metal binding site [ion binding]; metal-binding site 568816005573 interdomain interaction site; other site 568816005574 OstA-like protein; Region: OstA; cl00844 568816005575 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 568816005576 Helix-turn-helix domains; Region: HTH; cl00088 568816005577 FOG: CBS domain [General function prediction only]; Region: COG0517 568816005578 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 568816005579 phosphoenolpyruvate synthase; Validated; Region: PRK06464 568816005580 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 568816005581 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 568816005582 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; cl09155 568816005583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 568816005584 Flavin Reductases; Region: FlaRed; cl00801 568816005585 Peptidase family M48; Region: Peptidase_M48; cl12018 568816005586 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 568816005587 ABC-ATPase subunit interface; other site 568816005588 dimer interface [polypeptide binding]; other site 568816005589 putative PBP binding regions; other site 568816005590 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 568816005591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816005592 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 568816005593 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816005594 Helix-turn-helix domains; Region: HTH; cl00088 568816005595 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816005596 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 568816005597 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 568816005598 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 568816005599 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 568816005600 OPT oligopeptide transporter protein; Region: OPT; cl14607 568816005601 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 568816005602 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 568816005603 substrate binding site [chemical binding]; other site 568816005604 active site 568816005605 catalytic residues [active] 568816005606 heterodimer interface [polypeptide binding]; other site 568816005607 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 568816005608 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 568816005609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005610 catalytic residue [active] 568816005611 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 monomeric; Region: PRAI; cd00405 568816005612 active site 568816005613 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 568816005614 active site 568816005615 ribulose/triose binding site [chemical binding]; other site 568816005616 phosphate binding site [ion binding]; other site 568816005617 substrate (anthranilate) binding pocket [chemical binding]; other site 568816005618 product (indole) binding pocket [chemical binding]; other site 568816005619 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 568816005620 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 568816005621 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 568816005622 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 568816005623 Glutamine amidotransferase class-I; Region: GATase; pfam00117 568816005624 glutamine binding [chemical binding]; other site 568816005625 catalytic triad [active] 568816005626 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 568816005627 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 568816005628 chorismate binding enzyme; Region: Chorismate_bind; cl10555 568816005629 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816005630 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 568816005631 putative metal binding site [ion binding]; other site 568816005632 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005633 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 568816005634 metal binding site [ion binding]; metal-binding site 568816005635 dimer interface [polypeptide binding]; other site 568816005636 NMT1-like family; Region: NMT1_2; cl15260 568816005637 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 568816005638 dimer interface [polypeptide binding]; other site 568816005639 conserved gate region; other site 568816005640 ABC-ATPase subunit interface; other site 568816005641 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 568816005642 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 568816005643 Walker A/P-loop; other site 568816005644 ATP binding site [chemical binding]; other site 568816005645 Q-loop/lid; other site 568816005646 ABC transporter signature motif; other site 568816005647 Walker B; other site 568816005648 D-loop; other site 568816005649 H-loop/switch region; other site 568816005650 NIL domain; Region: NIL; cl09633 568816005651 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816005652 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 568816005653 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816005654 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816005655 Predicted permease [General function prediction only]; Region: COG2985 568816005656 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 568816005657 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 568816005658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816005659 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 568816005660 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816005661 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005662 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 568816005663 metal binding site [ion binding]; metal-binding site 568816005664 dimer interface [polypeptide binding]; other site 568816005665 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 568816005666 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 568816005667 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 568816005668 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568816005669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816005670 DNA-binding site [nucleotide binding]; DNA binding site 568816005671 FCD domain; Region: FCD; cl11656 568816005672 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 568816005673 core dimer interface [polypeptide binding]; other site 568816005674 peripheral dimer interface [polypeptide binding]; other site 568816005675 L10 interface [polypeptide binding]; other site 568816005676 L11 interface [polypeptide binding]; other site 568816005677 putative EF-Tu interaction site [polypeptide binding]; other site 568816005678 putative EF-G interaction site [polypeptide binding]; other site 568816005679 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 568816005680 23S rRNA interface [nucleotide binding]; other site 568816005681 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 568816005682 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 568816005683 mRNA/rRNA interface [nucleotide binding]; other site 568816005684 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 568816005685 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 568816005686 23S rRNA interface [nucleotide binding]; other site 568816005687 L7/L12 interface [polypeptide binding]; other site 568816005688 putative thiostrepton binding site; other site 568816005689 L25 interface [polypeptide binding]; other site 568816005690 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 568816005691 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 568816005692 putative homodimer interface [polypeptide binding]; other site 568816005693 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 568816005694 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 568816005695 elongation factor Tu; Reviewed; Region: PRK00049 568816005696 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 568816005697 G1 box; other site 568816005698 GEF interaction site [polypeptide binding]; other site 568816005699 GTP/Mg2+ binding site [chemical binding]; other site 568816005700 Switch I region; other site 568816005701 G2 box; other site 568816005702 G3 box; other site 568816005703 Switch II region; other site 568816005704 G4 box; other site 568816005705 G5 box; other site 568816005706 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 568816005707 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 568816005708 Antibiotic Binding Site [chemical binding]; other site 568816005709 Bacitracin resistance protein BacA; Region: BacA; cl00858 568816005710 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 568816005711 active site 568816005712 ADP/pyrophosphate binding site [chemical binding]; other site 568816005713 dimerization interface [polypeptide binding]; other site 568816005714 allosteric effector site; other site 568816005715 fructose-1,6-bisphosphate binding site; other site 568816005716 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816005717 RNA polymerase factor sigma-70; Validated; Region: PRK08295 568816005718 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568816005719 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 568816005720 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 568816005721 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 568816005722 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 568816005723 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 568816005724 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816005725 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 568816005726 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816005727 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816005728 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 568816005729 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 568816005730 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 568816005731 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 568816005732 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568816005733 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816005734 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816005735 FAD binding domain; Region: FAD_binding_4; pfam01565 568816005736 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 568816005737 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 568816005738 substrate binding site [chemical binding]; other site 568816005739 THF binding site; other site 568816005740 zinc-binding site [ion binding]; other site 568816005741 biotin synthase; Provisional; Region: PRK07094 568816005742 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 568816005743 FeS/SAM binding site; other site 568816005744 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 568816005745 amino acid transporter; Region: 2A0306; TIGR00909 568816005746 Spore germination protein; Region: Spore_permease; cl15802 568816005747 Peptidase C26; Region: Peptidase_C26; pfam07722 568816005748 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 568816005749 catalytic triad [active] 568816005750 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 568816005751 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 568816005752 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 568816005753 substrate binding pocket [chemical binding]; other site 568816005754 dimer interface [polypeptide binding]; other site 568816005755 inhibitor binding site; inhibition site 568816005756 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 568816005757 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 568816005758 B12 binding site [chemical binding]; other site 568816005759 cobalt ligand [ion binding]; other site 568816005760 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 568816005761 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 568816005762 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 568816005763 FAD binding site [chemical binding]; other site 568816005764 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816005765 Isochorismatase family; Region: Isochorismatase; pfam00857 568816005766 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 568816005767 catalytic triad [active] 568816005768 dimer interface [polypeptide binding]; other site 568816005769 conserved cis-peptide bond; other site 568816005770 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 568816005771 peptidase T; Region: peptidase-T; TIGR01882 568816005772 metal binding site [ion binding]; metal-binding site 568816005773 dimer interface [polypeptide binding]; other site 568816005774 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816005775 active site 568816005776 polyphosphate kinase; Provisional; Region: PRK05443 568816005777 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 568816005778 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 568816005779 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 568816005780 putative domain interface [polypeptide binding]; other site 568816005781 putative active site [active] 568816005782 catalytic site [active] 568816005783 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 568816005784 putative domain interface [polypeptide binding]; other site 568816005785 putative active site [active] 568816005786 catalytic site [active] 568816005787 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 568816005788 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 568816005789 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 568816005790 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 568816005791 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816005792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005793 Helix-turn-helix domains; Region: HTH; cl00088 568816005794 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816005795 dimerization interface [polypeptide binding]; other site 568816005796 LrgB-like family; Region: LrgB; cl00596 568816005797 LrgA family; Region: LrgA; cl00608 568816005798 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005799 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 568816005800 hypothetical protein; Provisional; Region: PRK07205 568816005801 active site 568816005802 metal binding site [ion binding]; metal-binding site 568816005803 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 568816005804 active site 568816005805 Helix-turn-helix domains; Region: HTH; cl00088 568816005806 Rrf2 family protein; Region: rrf2_super; TIGR00738 568816005807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005808 Helix-turn-helix domains; Region: HTH; cl00088 568816005809 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816005810 dimerization interface [polypeptide binding]; other site 568816005811 Dehydratase family; Region: ILVD_EDD; cl00340 568816005812 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 568816005813 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 568816005814 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 568816005815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005816 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816005817 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 568816005818 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 568816005819 catalytic loop [active] 568816005820 iron binding site [ion binding]; other site 568816005821 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 568816005822 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 568816005823 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816005824 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 568816005825 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 568816005826 putative substrate binding pocket [chemical binding]; other site 568816005827 AC domain interface; other site 568816005828 catalytic triad [active] 568816005829 AB domain interface; other site 568816005830 interchain disulfide; other site 568816005831 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 568816005832 Protein of unknown function (DUF805); Region: DUF805; cl01224 568816005833 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 568816005834 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 568816005835 short chain dehydrogenase; Provisional; Region: PRK07023 568816005836 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 568816005837 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 568816005838 amidase catalytic site [active] 568816005839 Zn binding residues [ion binding]; other site 568816005840 substrate binding site [chemical binding]; other site 568816005841 Protein of unknown function (DUF805); Region: DUF805; cl01224 568816005842 Protein of unknown function (DUF523); Region: DUF523; cl00733 568816005843 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005844 MatE; Region: MatE; cl10513 568816005845 MatE; Region: MatE; cl10513 568816005846 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 568816005847 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568816005848 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 568816005849 substrate binding site [chemical binding]; other site 568816005850 Protein of unknown function (DUF521); Region: DUF521; pfam04412 568816005851 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816005852 substrate binding site [chemical binding]; other site 568816005853 ligand binding site [chemical binding]; other site 568816005854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005855 Helix-turn-helix domains; Region: HTH; cl00088 568816005856 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816005857 dimerization interface [polypeptide binding]; other site 568816005858 bifunctional formaldehyde-activating enzyme/3-hexulose-6-phosphate synthase; Provisional; Region: PRK13307 568816005859 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14610 568816005860 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 568816005861 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; cl15357 568816005862 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 568816005863 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005864 metal binding site [ion binding]; metal-binding site 568816005865 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 568816005866 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816005867 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816005868 metal binding site [ion binding]; metal-binding site 568816005869 dimer interface [polypeptide binding]; other site 568816005870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005871 Helix-turn-helix domains; Region: HTH; cl00088 568816005872 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816005873 dimerization interface [polypeptide binding]; other site 568816005874 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568816005875 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568816005876 DNA binding site [nucleotide binding] 568816005877 domain linker motif; other site 568816005878 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 568816005879 ligand binding site [chemical binding]; other site 568816005880 dimerization interface [polypeptide binding]; other site 568816005881 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 568816005882 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 568816005883 inhibitor site; inhibition site 568816005884 active site 568816005885 dimer interface [polypeptide binding]; other site 568816005886 catalytic residue [active] 568816005887 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 568816005888 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 568816005889 S-layer homology domain; Region: SLH; pfam00395 568816005890 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816005891 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 568816005892 dimer interface [polypeptide binding]; other site 568816005893 PYR/PP interface [polypeptide binding]; other site 568816005894 TPP binding site [chemical binding]; other site 568816005895 substrate binding site [chemical binding]; other site 568816005896 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568816005897 Domain of unknown function; Region: EKR; cl11037 568816005898 4Fe-4S binding domain; Region: Fer4; cl02805 568816005899 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 568816005900 TPP-binding site [chemical binding]; other site 568816005901 dimer interface [polypeptide binding]; other site 568816005902 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 568816005903 active site 568816005904 catalytic site [active] 568816005905 substrate binding site [chemical binding]; other site 568816005906 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 568816005907 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 568816005908 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 568816005909 Oligomerisation domain; Region: Oligomerisation; cl00519 568816005910 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 568816005911 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 568816005912 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 568816005913 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 568816005914 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 568816005915 active site 568816005916 (T/H)XGH motif; other site 568816005917 histidinol-phosphatase; Provisional; Region: PRK05588 568816005918 YchF GTPase; Region: YchF; cd01900 568816005919 GTP-binding protein YchF; Reviewed; Region: PRK09601 568816005920 G1 box; other site 568816005921 GTP/Mg2+ binding site [chemical binding]; other site 568816005922 Switch I region; other site 568816005923 G2 box; other site 568816005924 Switch II region; other site 568816005925 G3 box; other site 568816005926 G4 box; other site 568816005927 G5 box; other site 568816005928 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 568816005929 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 568816005930 MgtE intracellular N domain; Region: MgtE_N; cl15244 568816005931 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 568816005932 Divalent cation transporter; Region: MgtE; cl00786 568816005933 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 568816005934 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 568816005935 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 568816005936 active site turn [active] 568816005937 phosphorylation site [posttranslational modification] 568816005938 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 568816005939 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 568816005940 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 568816005941 putative active site [active] 568816005942 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 568816005943 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 568816005944 active site 568816005945 dimer interface [polypeptide binding]; other site 568816005946 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 568816005947 Predicted transcriptional regulator [Transcription]; Region: COG1959 568816005948 Helix-turn-helix domains; Region: HTH; cl00088 568816005949 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 568816005950 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 568816005951 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 568816005952 alphaNTD homodimer interface [polypeptide binding]; other site 568816005953 alphaNTD - beta interaction site [polypeptide binding]; other site 568816005954 alphaNTD - beta' interaction site [polypeptide binding]; other site 568816005955 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 568816005956 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 568816005957 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 568816005958 RNA binding surface [nucleotide binding]; other site 568816005959 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 568816005960 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 568816005961 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 568816005962 rRNA binding site [nucleotide binding]; other site 568816005963 predicted 30S ribosome binding site; other site 568816005964 adenylate kinase; Reviewed; Region: adk; PRK00279 568816005965 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 568816005966 AMP-binding site [chemical binding]; other site 568816005967 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 568816005968 SecY translocase; Region: SecY; pfam00344 568816005969 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 568816005970 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 568816005971 23S rRNA binding site [nucleotide binding]; other site 568816005972 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 568816005973 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 568816005974 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 568816005975 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 568816005976 5S rRNA interface [nucleotide binding]; other site 568816005977 L27 interface [polypeptide binding]; other site 568816005978 23S rRNA interface [nucleotide binding]; other site 568816005979 L5 interface [polypeptide binding]; other site 568816005980 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 568816005981 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 568816005982 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 568816005983 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 568816005984 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 568816005985 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 568816005986 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 568816005987 KOW motif; Region: KOW; cl00354 568816005988 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 568816005989 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 568816005990 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 568816005991 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 568816005992 putative translocon interaction site; other site 568816005993 signal recognition particle (SRP54) interaction site; other site 568816005994 L23 interface [polypeptide binding]; other site 568816005995 trigger factor interaction site; other site 568816005996 23S rRNA interface [nucleotide binding]; other site 568816005997 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 568816005998 5S rRNA interface [nucleotide binding]; other site 568816005999 23S rRNA interface [nucleotide binding]; other site 568816006000 putative antibiotic binding site [chemical binding]; other site 568816006001 L25 interface [polypeptide binding]; other site 568816006002 L27 interface [polypeptide binding]; other site 568816006003 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 568816006004 30S ribosomal protein S3P; Reviewed; Region: rps3p; PRK04191 568816006005 G-X-X-G motif; other site 568816006006 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 568816006007 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 568816006008 putative translocon binding site; other site 568816006009 protein-rRNA interface [nucleotide binding]; other site 568816006010 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 568816006011 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 568816006012 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 568816006013 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 568816006014 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 568816006015 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 568816006016 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 568816006017 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 568816006018 elongation factor Tu; Reviewed; Region: PRK00049 568816006019 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 568816006020 G1 box; other site 568816006021 GEF interaction site [polypeptide binding]; other site 568816006022 GTP/Mg2+ binding site [chemical binding]; other site 568816006023 Switch I region; other site 568816006024 G2 box; other site 568816006025 G3 box; other site 568816006026 Switch II region; other site 568816006027 G4 box; other site 568816006028 G5 box; other site 568816006029 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 568816006030 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 568816006031 Antibiotic Binding Site [chemical binding]; other site 568816006032 elongation factor G; Reviewed; Region: PRK00007 568816006033 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 568816006034 G1 box; other site 568816006035 putative GEF interaction site [polypeptide binding]; other site 568816006036 GTP/Mg2+ binding site [chemical binding]; other site 568816006037 Switch I region; other site 568816006038 G2 box; other site 568816006039 G3 box; other site 568816006040 Switch II region; other site 568816006041 G4 box; other site 568816006042 G5 box; other site 568816006043 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 568816006044 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 568816006045 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 568816006046 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 568816006047 Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding...; Region: Ribosomal_S12_like; cl00312 568816006048 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 568816006049 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 568816006050 Cupin domain; Region: Cupin_2; cl09118 568816006051 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 568816006052 Uncharacterized conserved protein [Function unknown]; Region: COG2966 568816006053 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 568816006054 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 568816006055 putative uracil binding site [chemical binding]; other site 568816006056 putative active site [active] 568816006057 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 568816006058 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816006059 Walker A/P-loop; other site 568816006060 ATP binding site [chemical binding]; other site 568816006061 Q-loop/lid; other site 568816006062 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 568816006063 ABC transporter signature motif; other site 568816006064 Walker B; other site 568816006065 D-loop; other site 568816006066 ABC transporter; Region: ABC_tran_2; pfam12848 568816006067 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 568816006068 ABC transporter; Region: ABC_tran_2; pfam12848 568816006069 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 568816006070 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 568816006071 NAD binding site [chemical binding]; other site 568816006072 homodimer interface [polypeptide binding]; other site 568816006073 active site 568816006074 substrate binding site [chemical binding]; other site 568816006075 phosphomannomutase CpsG; Provisional; Region: PRK15414 568816006076 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 568816006077 active site 568816006078 substrate binding site [chemical binding]; other site 568816006079 metal binding site [ion binding]; metal-binding site 568816006080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816006081 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816006082 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 568816006083 Clp amino terminal domain; Region: Clp_N; pfam02861 568816006084 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 568816006085 Walker A motif; other site 568816006086 ATP binding site [chemical binding]; other site 568816006087 Walker B motif; other site 568816006088 arginine finger; other site 568816006089 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 568816006090 putative YPXnL-motif binding site; other site 568816006091 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 568816006092 Walker A motif; other site 568816006093 ATP binding site [chemical binding]; other site 568816006094 Walker B motif; other site 568816006095 arginine finger; other site 568816006096 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 568816006097 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 568816006098 putative active site [active] 568816006099 putative metal binding residues [ion binding]; other site 568816006100 signature motif; other site 568816006101 putative triphosphate binding site [ion binding]; other site 568816006102 Flavin Reductases; Region: FlaRed; cl00801 568816006103 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816006104 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816006105 active site 568816006106 metal binding site [ion binding]; metal-binding site 568816006107 dimer interface [polypeptide binding]; other site 568816006108 putative transposase OrfB; Reviewed; Region: PHA02517 568816006109 HTH-like domain; Region: HTH_21; pfam13276 568816006110 Integrase core domain; Region: rve; cl01316 568816006111 Integrase core domain; Region: rve_3; cl15866 568816006112 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 568816006113 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 568816006114 NAD(P) binding site [chemical binding]; other site 568816006115 catalytic residues [active] 568816006116 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 568816006117 dimerization interface [polypeptide binding]; other site 568816006118 putative DNA binding site [nucleotide binding]; other site 568816006119 putative Zn2+ binding site [ion binding]; other site 568816006120 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 568816006121 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 568816006122 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568816006123 classical (c) SDRs; Region: SDR_c; cd05233 568816006124 NAD(P) binding site [chemical binding]; other site 568816006125 active site 568816006126 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 protein; Region: CSP_CDS; cd04458 568816006127 DNA-binding site [nucleotide binding]; DNA binding site 568816006128 RNA-binding motif; other site 568816006129 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 568816006130 putative active site [active] 568816006131 GIY-YIG motif/motif A; other site 568816006132 putative metal binding site [ion binding]; other site 568816006133 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 568816006134 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 568816006135 active site 568816006136 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 568816006137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816006138 Peptidase family M23; Region: Peptidase_M23; pfam01551 568816006139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006140 Helix-turn-helix domains; Region: HTH; cl00088 568816006141 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816006142 dimerization interface [polypeptide binding]; other site 568816006143 S-layer homology domain; Region: SLH; pfam00395 568816006144 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; cl15357 568816006145 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; cl15357 568816006146 transmembrane helices; other site 568816006147 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568816006148 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; cl12031 568816006149 stage V sporulation protein B; Region: spore_V_B; TIGR02900 568816006150 MatE; Region: MatE; cl10513 568816006151 MatE; Region: MatE; cl10513 568816006152 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 568816006153 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 568816006154 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 568816006155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 568816006156 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 568816006157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 568816006158 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 568816006159 putative dimer interface [polypeptide binding]; other site 568816006160 KWG Leptospira; Region: KWG; pfam07656 568816006161 putative transposase OrfB; Reviewed; Region: PHA02517 568816006162 HTH-like domain; Region: HTH_21; pfam13276 568816006163 Integrase core domain; Region: rve; cl01316 568816006164 Integrase core domain; Region: rve_3; cl15866 568816006165 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 568816006166 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 568816006167 homodimer interface [polypeptide binding]; other site 568816006168 substrate-cofactor binding pocket; other site 568816006169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816006170 catalytic residue [active] 568816006171 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816006172 EamA-like transporter family; Region: EamA; cl01037 568816006173 EamA-like transporter family; Region: EamA; cl01037 568816006174 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 568816006175 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816006176 putative transposase OrfB; Reviewed; Region: PHA02517 568816006177 HTH-like domain; Region: HTH_21; pfam13276 568816006178 Integrase core domain; Region: rve; cl01316 568816006179 Integrase core domain; Region: rve_3; cl15866 568816006180 Glutaminase; Region: Glutaminase; cl00907 568816006181 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816006182 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816006183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006184 Helix-turn-helix domains; Region: HTH; cl00088 568816006185 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 568816006186 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 568816006187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816006188 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 568816006189 putative L-serine binding site [chemical binding]; other site 568816006190 RmuC family; Region: RmuC; pfam02646 568816006191 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 568816006192 putative active site [active] 568816006193 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 568816006194 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816006195 Helix-turn-helix domains; Region: HTH; cl00088 568816006196 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568816006197 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816006198 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 568816006199 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 568816006200 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816006201 MatE; Region: MatE; cl10513 568816006202 MatE; Region: MatE; cl10513 568816006203 LysE type translocator; Region: LysE; cl00565 568816006204 fumarate hydratase; Reviewed; Region: fumC; PRK00485 568816006205 Class II fumarases; Region: Fumarase_classII; cd01362 568816006206 active site 568816006207 tetramer interface [polypeptide binding]; other site 568816006208 TIGR04076 family protein; Region: TIGR04076 568816006209 2-isopropylmalate synthase; Validated; Region: PRK03739 568816006210 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 568816006211 active site 568816006212 catalytic residues [active] 568816006213 metal binding site [ion binding]; metal-binding site 568816006214 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 568816006215 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568816006216 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 568816006217 substrate binding site [chemical binding]; other site 568816006218 ligand binding site [chemical binding]; other site 568816006219 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 568816006220 substrate binding site [chemical binding]; other site 568816006221 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 568816006222 tartrate dehydrogenase; Provisional; Region: PRK08194 568816006223 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 568816006224 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 568816006225 GDP-binding site [chemical binding]; other site 568816006226 ACT binding site; other site 568816006227 IMP binding site; other site 568816006228 adenylosuccinate lyase; Provisional; Region: PRK07380 568816006229 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 568816006230 tetramer interface [polypeptide binding]; other site 568816006231 active site 568816006232 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 568816006233 replicative DNA helicase; Region: DnaB; TIGR00665 568816006234 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 568816006235 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 568816006236 Walker A motif; other site 568816006237 ATP binding site [chemical binding]; other site 568816006238 Walker B motif; other site 568816006239 DNA binding loops [nucleotide binding] 568816006240 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 568816006241 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 568816006242 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 568816006243 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 568816006244 DHH family; Region: DHH; pfam01368 568816006245 DHHA1 domain; Region: DHHA1; pfam02272 568816006246 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 568816006247 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568816006248 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 568816006249 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 568816006250 NAD binding site [chemical binding]; other site 568816006251 dimer interface [polypeptide binding]; other site 568816006252 substrate binding site [chemical binding]; other site 568816006253 tetramer (dimer of dimers) interface [polypeptide binding]; other site 568816006254 GntP family permease; Region: GntP_permease; pfam02447 568816006255 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 568816006256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006257 Helix-turn-helix domains; Region: HTH; cl00088 568816006258 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816006259 dimerization interface [polypeptide binding]; other site 568816006260 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 568816006261 putative metal binding site [ion binding]; other site 568816006262 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 568816006263 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 568816006264 G1 box; other site 568816006265 GTP/Mg2+ binding site [chemical binding]; other site 568816006266 G2 box; other site 568816006267 Switch I region; other site 568816006268 G3 box; other site 568816006269 Switch II region; other site 568816006270 G4 box; other site 568816006271 G5 box; other site 568816006272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816006273 G4 box; other site 568816006274 GTP/Mg2+ binding site [chemical binding]; other site 568816006275 G5 box; other site 568816006276 Predicted GTPase [General function prediction only]; Region: COG0218 568816006277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816006278 G1 box; other site 568816006279 G1 box; other site 568816006280 GTP/Mg2+ binding site [chemical binding]; other site 568816006281 G2 box; other site 568816006282 Switch I region; other site 568816006283 Switch I region; other site 568816006284 G2 box; other site 568816006285 G3 box; other site 568816006286 G3 box; other site 568816006287 Switch II region; other site 568816006288 Switch II region; other site 568816006289 G4 box; other site 568816006290 G5 box; other site 568816006291 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 568816006292 active site 568816006293 homodimer interface [polypeptide binding]; other site 568816006294 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 568816006295 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 568816006296 substrate-cofactor binding pocket; other site 568816006297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816006298 catalytic residue [active] 568816006299 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 568816006300 Cupin domain; Region: Cupin_2; cl09118 568816006301 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 568816006302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006303 Helix-turn-helix domains; Region: HTH; cl00088 568816006304 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 568816006305 dimerization interface [polypeptide binding]; other site 568816006306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816006307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 568816006308 active site 568816006309 phosphorylation site [posttranslational modification] 568816006310 intermolecular recognition site; other site 568816006311 dimerization interface [polypeptide binding]; other site 568816006312 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 568816006313 DNA binding site [nucleotide binding] 568816006314 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 568816006315 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 568816006316 dimerization interface [polypeptide binding]; other site 568816006317 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 568816006318 dimer interface [polypeptide binding]; other site 568816006319 phosphorylation site [posttranslational modification] 568816006320 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 568816006321 ATP binding site [chemical binding]; other site 568816006322 Mg2+ binding site [ion binding]; other site 568816006323 G-X-G motif; other site 568816006324 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 568816006325 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 568816006326 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568816006327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816006328 NAD(P) binding site [chemical binding]; other site 568816006329 active site 568816006330 S-layer homology domain; Region: SLH; pfam00395 568816006331 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; cl00284 568816006332 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 568816006333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816006334 Coenzyme A binding pocket [chemical binding]; other site 568816006335 Protein of unknown function (DUF554); Region: DUF554; cl00784 568816006336 ParB-like partition proteins; Region: parB_part; TIGR00180 568816006337 ParB-like nuclease domain; Region: ParBc; cl02129 568816006338 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 568816006339 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 568816006340 P-loop; other site 568816006341 Magnesium ion binding site [ion binding]; other site 568816006342 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 568816006343 Magnesium ion binding site [ion binding]; other site 568816006344 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 568816006345 substrate binding site [chemical binding]; other site 568816006346 THF binding site; other site 568816006347 zinc-binding site [ion binding]; other site 568816006348 NMT1-like family; Region: NMT1_2; cl15260 568816006349 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 568816006350 non-specific DNA binding site [nucleotide binding]; other site 568816006351 salt bridge; other site 568816006352 sequence-specific DNA binding site [nucleotide binding]; other site 568816006353 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; cl15754 568816006354 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 568816006355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816006356 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 568816006357 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 568816006358 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 568816006359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 568816006360 trmE is a tRNA modification GTPase; Region: trmE; cd04164 568816006361 G1 box; other site 568816006362 G1 box; other site 568816006363 GTP/Mg2+ binding site [chemical binding]; other site 568816006364 GTP/Mg2+ binding site [chemical binding]; other site 568816006365 Switch I region; other site 568816006366 Switch I region; other site 568816006367 G2 box; other site 568816006368 G2 box; other site 568816006369 Switch II region; other site 568816006370 G3 box; other site 568816006371 G4 box; other site 568816006372 G5 box; other site 568816006373 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 568816006374 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 568816006375 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 568816006376 G-X-X-G motif; other site 568816006377 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 568816006378 RxxxH motif; other site 568816006379 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 568816006380 Ribonuclease P; Region: Ribonuclease_P; cl00457 568816006381 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 568816006382 Peptidase C26; Region: Peptidase_C26; pfam07722 568816006383 catalytic triad [active] 568816006384 Sulfatase; Region: Sulfatase; cl10460 568816006385 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816006386 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 568816006387 DNA binding residues [nucleotide binding] 568816006388 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816006389 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816006390 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 568816006391 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 568816006392 catalytic triad [active] 568816006393 Membrane transport protein; Region: Mem_trans; cl09117 568816006394 xanthine permease; Region: pbuX; TIGR03173 568816006395 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 568816006396 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 568816006397 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816006398 active site 568816006399 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 568816006400 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; cl12031 568816006401 substrate binding pocket [chemical binding]; other site 568816006402 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; cl12031 568816006403 potential protein location (hypothetical protein Acin_2465 [Acidaminococcus intestini RyC-MR95]) that overlaps RNA (tRNA-G)