-- dump date 20140618_184509 -- 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 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 568816000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816000017 Walker A/P-loop; other site 568816000018 ATP binding site [chemical binding]; other site 568816000019 Q-loop/lid; other site 568816000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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; pfam05258 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 hypothetical protein; Provisional; Region: PRK10621 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...; 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; pfam00665 568816000062 Integrase core domain; Region: rve_2; pfam13333 568816000063 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 568816000064 Protein of unknown function (DUF805); Region: DUF805; pfam05656 568816000065 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 568816000066 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 568816000067 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 568816000068 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 568816000069 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 568816000070 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 568816000071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816000072 homodimer interface [polypeptide binding]; other site 568816000073 catalytic residue [active] 568816000074 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 568816000075 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 568816000076 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 568816000077 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 568816000078 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 568816000079 prephenate dehydrogenase; Validated; Region: PRK08507 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 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 568816000085 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 568816000086 hinge; other site 568816000087 active site 568816000088 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 568816000089 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 568816000090 Tetramer interface [polypeptide binding]; other site 568816000091 active site 568816000092 FMN-binding site [chemical binding]; other site 568816000093 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 568816000094 Prephenate dehydratase; Region: PDT; pfam00800 568816000095 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 568816000096 putative L-Phe binding site [chemical binding]; other site 568816000097 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 568816000098 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 568816000099 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 568816000100 shikimate binding site; other site 568816000101 NAD(P) binding site [chemical binding]; other site 568816000102 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 568816000103 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 568816000104 ADP binding site [chemical binding]; other site 568816000105 magnesium binding site [ion binding]; other site 568816000106 putative shikimate binding site; other site 568816000107 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 568816000108 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 568816000109 active site 568816000110 catalytic residues [active] 568816000111 metal binding site [ion binding]; metal-binding site 568816000112 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 568816000113 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 568816000114 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 568816000115 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 568816000116 shikimate binding site; other site 568816000117 NAD(P) binding site [chemical binding]; other site 568816000118 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568816000119 DctM-like transporters; Region: DctM; pfam06808 568816000120 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568816000121 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568816000122 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568816000123 EamA-like transporter family; Region: EamA; pfam00892 568816000124 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816000125 EamA-like transporter family; Region: EamA; pfam00892 568816000126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816000128 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 568816000129 dimerization interface [polypeptide binding]; other site 568816000130 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 568816000131 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568816000132 PYR/PP interface [polypeptide binding]; other site 568816000133 dimer interface [polypeptide binding]; other site 568816000134 TPP binding site [chemical binding]; other site 568816000135 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568816000136 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 568816000137 TPP-binding site [chemical binding]; other site 568816000138 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 568816000139 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 568816000140 tetramer interface [polypeptide binding]; other site 568816000141 active site 568816000142 Mg2+/Mn2+ binding site [ion binding]; other site 568816000143 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816000146 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 568816000147 dimerization interface [polypeptide binding]; other site 568816000148 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 568816000149 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 568816000150 putative catalytic cysteine [active] 568816000151 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 568816000152 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 568816000153 Walker A motif; other site 568816000154 ATP binding site [chemical binding]; other site 568816000155 Walker B motif; other site 568816000156 arginine finger; other site 568816000157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 568816000158 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 568816000159 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 568816000160 active site 568816000161 catalytic residue [active] 568816000162 dimer interface [polypeptide binding]; other site 568816000163 shikimate kinase; Reviewed; Region: aroK; PRK00131 568816000164 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 568816000165 ADP binding site [chemical binding]; other site 568816000166 magnesium binding site [ion binding]; other site 568816000167 putative shikimate binding site; other site 568816000168 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 568816000169 Mechanosensitive ion channel; Region: MS_channel; pfam00924 568816000170 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 568816000171 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 568816000172 MOFRL family; Region: MOFRL; pfam05161 568816000173 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 568816000174 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816000175 metal binding site [ion binding]; metal-binding site 568816000176 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 568816000177 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 568816000178 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 568816000179 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816000180 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 568816000181 PYR/PP interface [polypeptide binding]; other site 568816000182 dimer interface [polypeptide binding]; other site 568816000183 TPP binding site [chemical binding]; other site 568816000184 substrate binding site [chemical binding]; other site 568816000185 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 568816000186 Domain of unknown function; Region: EKR; pfam10371 568816000187 4Fe-4S binding domain; Region: Fer4_6; pfam12837 568816000188 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 568816000189 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 568816000190 TPP-binding site [chemical binding]; other site 568816000191 dimer interface [polypeptide binding]; other site 568816000192 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 568816000193 DctM-like transporters; Region: DctM; pfam06808 568816000194 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 568816000195 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 568816000196 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 568816000197 substrate binding pocket [chemical binding]; other site 568816000198 membrane-bound complex binding site; other site 568816000199 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 568816000200 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 568816000201 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 568816000202 PhoU domain; Region: PhoU; pfam01895 568816000203 PhoU domain; Region: PhoU; pfam01895 568816000204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816000205 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816000206 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000207 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 568816000208 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 568816000209 active site 568816000210 dimer interface [polypeptide binding]; other site 568816000211 effector binding site; other site 568816000212 TSCPD domain; Region: TSCPD; pfam12637 568816000213 Sulfatase; Region: Sulfatase; cl17466 568816000214 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 568816000215 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 568816000216 Ligand binding site; other site 568816000217 metal-binding site 568816000218 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 568816000219 O-Antigen ligase; Region: Wzy_C; pfam04932 568816000220 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 568816000221 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568816000222 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 568816000223 putative active site [active] 568816000224 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 568816000225 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 568816000226 Ligand binding site; other site 568816000227 metal-binding site 568816000228 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 568816000229 nitrilase; Region: PLN02798 568816000230 putative active site [active] 568816000231 catalytic triad [active] 568816000232 dimer interface [polypeptide binding]; other site 568816000233 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568816000234 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 568816000235 putative NAD(P) binding site [chemical binding]; other site 568816000236 active site 568816000237 putative substrate binding site [chemical binding]; other site 568816000238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816000239 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816000240 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000241 Sulfatase; Region: Sulfatase; cl17466 568816000242 Protein of unknown function, DUF488; Region: DUF488; cl01246 568816000243 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 568816000244 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816000245 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816000246 trigger factor; Provisional; Region: tig; PRK01490 568816000247 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 568816000248 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 568816000249 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 568816000250 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 568816000251 oligomer interface [polypeptide binding]; other site 568816000252 active site residues [active] 568816000253 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 568816000254 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 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 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 568816000260 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 568816000261 Found in ATP-dependent protease La (LON); Region: LON; smart00464 568816000262 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 568816000263 Walker A motif; other site 568816000264 ATP binding site [chemical binding]; other site 568816000265 Walker B motif; other site 568816000266 arginine finger; other site 568816000267 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 568816000268 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 568816000269 G1 box; other site 568816000270 GTP/Mg2+ binding site [chemical binding]; other site 568816000271 Switch I region; other site 568816000272 G2 box; other site 568816000273 G3 box; other site 568816000274 Switch II region; other site 568816000275 G4 box; other site 568816000276 G5 box; other site 568816000277 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 568816000278 putative active site [active] 568816000279 putative CoA binding site [chemical binding]; other site 568816000280 nudix motif; other site 568816000281 metal binding site [ion binding]; metal-binding site 568816000282 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 568816000283 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 568816000284 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 568816000285 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 568816000286 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 568816000287 Type II/IV secretion system protein; Region: T2SE; pfam00437 568816000288 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 568816000289 Walker A motif; other site 568816000290 ATP binding site [chemical binding]; other site 568816000291 Walker B motif; other site 568816000292 Predicted membrane protein [Function unknown]; Region: COG2860 568816000293 UPF0126 domain; Region: UPF0126; pfam03458 568816000294 UPF0126 domain; Region: UPF0126; pfam03458 568816000295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 568816000296 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 568816000297 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 568816000298 excinuclease ABC subunit B; Provisional; Region: PRK05298 568816000299 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 568816000300 ATP binding site [chemical binding]; other site 568816000301 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 568816000302 nucleotide binding region [chemical binding]; other site 568816000303 ATP-binding site [chemical binding]; other site 568816000304 Ultra-violet resistance protein B; Region: UvrB; pfam12344 568816000305 UvrB/uvrC motif; Region: UVR; pfam02151 568816000306 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 568816000307 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 568816000308 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 568816000309 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 568816000310 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 568816000311 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 568816000312 GIY-YIG motif/motif A; other site 568816000313 active site 568816000314 catalytic site [active] 568816000315 putative DNA binding site [nucleotide binding]; other site 568816000316 metal binding site [ion binding]; metal-binding site 568816000317 UvrB/uvrC motif; Region: UVR; pfam02151 568816000318 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 568816000319 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 568816000320 Rubredoxin; Region: Rubredoxin; pfam00301 568816000321 iron binding site [ion binding]; other site 568816000322 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 568816000323 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 568816000324 active site 568816000325 motif I; other site 568816000326 motif II; other site 568816000327 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 568816000328 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 568816000329 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 568816000330 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 568816000331 phosphate binding site [ion binding]; other site 568816000332 putative substrate binding pocket [chemical binding]; other site 568816000333 dimer interface [polypeptide binding]; other site 568816000334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 568816000335 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 568816000336 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 568816000337 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 568816000338 putative active site [active] 568816000339 putative metal binding site [ion binding]; other site 568816000340 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 568816000341 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 568816000342 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 568816000343 FeS/SAM binding site; other site 568816000344 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 568816000345 potential protein location (transposase [Acidaminococcus intestini RyC-MR95]) that overlaps RNA (5S ribosomal RNA) 568816000346 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 568816000347 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 568816000348 putative valine binding site [chemical binding]; other site 568816000349 dimer interface [polypeptide binding]; other site 568816000350 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 568816000351 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 568816000352 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568816000353 PYR/PP interface [polypeptide binding]; other site 568816000354 dimer interface [polypeptide binding]; other site 568816000355 TPP binding site [chemical binding]; other site 568816000356 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568816000357 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 568816000358 TPP-binding site [chemical binding]; other site 568816000359 dimer interface [polypeptide binding]; other site 568816000360 ketol-acid reductoisomerase; Provisional; Region: PRK05479 568816000361 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 568816000362 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 568816000363 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 568816000364 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 568816000365 Walker A motif; other site 568816000366 ATP binding site [chemical binding]; other site 568816000367 Walker B motif; other site 568816000368 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 568816000369 Sodium Bile acid symporter family; Region: SBF; pfam01758 568816000370 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 568816000371 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816000372 peptidase T-like protein; Region: PepT-like; TIGR01883 568816000373 metal binding site [ion binding]; metal-binding site 568816000374 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 568816000375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816000376 DNA-binding site [nucleotide binding]; DNA binding site 568816000377 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 568816000378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816000379 homodimer interface [polypeptide binding]; other site 568816000380 catalytic residue [active] 568816000381 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 568816000382 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 568816000383 metal binding site [ion binding]; metal-binding site 568816000384 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816000385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816000386 Walker A/P-loop; other site 568816000387 ATP binding site [chemical binding]; other site 568816000388 Q-loop/lid; other site 568816000389 ABC transporter signature motif; other site 568816000390 Walker B; other site 568816000391 D-loop; other site 568816000392 H-loop/switch region; other site 568816000393 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 568816000394 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 568816000395 ABC-ATPase subunit interface; other site 568816000396 dimer interface [polypeptide binding]; other site 568816000397 putative PBP binding regions; other site 568816000398 ferric uptake regulator; Provisional; Region: fur; PRK09462 568816000399 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 568816000400 metal binding site 2 [ion binding]; metal-binding site 568816000401 putative DNA binding helix; other site 568816000402 metal binding site 1 [ion binding]; metal-binding site 568816000403 dimer interface [polypeptide binding]; other site 568816000404 structural Zn2+ binding site [ion binding]; other site 568816000405 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 568816000406 FMN binding site [chemical binding]; other site 568816000407 dimer interface [polypeptide binding]; other site 568816000408 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816000410 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 568816000411 dimerization interface [polypeptide binding]; other site 568816000412 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 568816000413 Citrate transporter; Region: CitMHS; pfam03600 568816000414 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 568816000415 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568816000416 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 568816000417 putative ligand binding site [chemical binding]; other site 568816000418 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568816000419 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 568816000420 TM-ABC transporter signature motif; other site 568816000421 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568816000422 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 568816000423 TM-ABC transporter signature motif; other site 568816000424 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568816000425 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568816000426 Walker A/P-loop; other site 568816000427 ATP binding site [chemical binding]; other site 568816000428 Q-loop/lid; other site 568816000429 ABC transporter signature motif; other site 568816000430 Walker B; other site 568816000431 D-loop; other site 568816000432 H-loop/switch region; other site 568816000433 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568816000434 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568816000435 Walker A/P-loop; other site 568816000436 ATP binding site [chemical binding]; other site 568816000437 Q-loop/lid; other site 568816000438 ABC transporter signature motif; other site 568816000439 Walker B; other site 568816000440 D-loop; other site 568816000441 H-loop/switch region; other site 568816000442 FOG: CBS domain [General function prediction only]; Region: COG0517 568816000443 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 568816000444 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816000445 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 568816000446 Predicted membrane protein [Function unknown]; Region: COG1288 568816000447 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 568816000448 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816000449 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 568816000450 metal binding site [ion binding]; metal-binding site 568816000451 dipeptidase PepV; Reviewed; Region: PRK07318 568816000452 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 568816000453 active site 568816000454 metal binding site [ion binding]; metal-binding site 568816000455 Protein of unknown function DUF111; Region: DUF111; pfam01969 568816000456 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 568816000457 AIR carboxylase; Region: AIRC; smart01001 568816000458 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 568816000459 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 568816000460 Ligand Binding Site [chemical binding]; other site 568816000461 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 568816000462 AAA domain; Region: AAA_26; pfam13500 568816000463 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 568816000464 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 568816000465 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 568816000466 inhibitor-cofactor binding pocket; inhibition site 568816000467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816000468 catalytic residue [active] 568816000469 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 568816000470 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 568816000471 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 568816000472 active site 568816000473 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 568816000474 Domain of unknown function DUF; Region: DUF204; pfam02659 568816000475 Domain of unknown function DUF; Region: DUF204; pfam02659 568816000476 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 568816000477 active site 568816000478 DNA polymerase IV; Validated; Region: PRK02406 568816000479 DNA binding site [nucleotide binding] 568816000480 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 568816000481 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 568816000482 Ligand Binding Site [chemical binding]; other site 568816000483 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 568816000484 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 568816000485 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 568816000486 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 568816000487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816000488 catalytic residue [active] 568816000489 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 568816000490 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 568816000491 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 568816000492 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 568816000493 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 568816000494 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 568816000495 E3 interaction surface; other site 568816000496 HlyD family secretion protein; Region: HlyD_3; pfam13437 568816000497 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 568816000498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816000499 Walker A/P-loop; other site 568816000500 ATP binding site [chemical binding]; other site 568816000501 Q-loop/lid; other site 568816000502 ABC transporter signature motif; other site 568816000503 Walker B; other site 568816000504 D-loop; other site 568816000505 H-loop/switch region; other site 568816000506 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 568816000507 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 568816000508 Walker A/P-loop; other site 568816000509 ATP binding site [chemical binding]; other site 568816000510 Q-loop/lid; other site 568816000511 ABC transporter signature motif; other site 568816000512 Walker B; other site 568816000513 D-loop; other site 568816000514 H-loop/switch region; other site 568816000515 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568816000516 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 568816000517 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568816000518 ABC-2 type transporter; Region: ABC2_membrane; cl17235 568816000519 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816000520 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816000521 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816000522 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816000523 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 568816000524 dimerization interface [polypeptide binding]; other site 568816000525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 568816000526 putative hydratase; Provisional; Region: PRK11413 568816000527 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816000528 substrate binding site [chemical binding]; other site 568816000529 ligand binding site [chemical binding]; other site 568816000530 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 568816000531 substrate binding site [chemical binding]; other site 568816000532 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 568816000533 Citrate transporter; Region: CitMHS; pfam03600 568816000534 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 568816000535 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 568816000536 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816000537 active site 568816000538 catalytic residues [active] 568816000539 metal binding site [ion binding]; metal-binding site 568816000540 homodimer binding site [polypeptide binding]; other site 568816000541 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816000542 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 568816000543 Walker A/P-loop; other site 568816000544 ATP binding site [chemical binding]; other site 568816000545 Q-loop/lid; other site 568816000546 ABC transporter signature motif; other site 568816000547 Walker B; other site 568816000548 D-loop; other site 568816000549 H-loop/switch region; other site 568816000550 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816000551 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 568816000552 Walker A/P-loop; other site 568816000553 ATP binding site [chemical binding]; other site 568816000554 Q-loop/lid; other site 568816000555 ABC transporter signature motif; other site 568816000556 Walker B; other site 568816000557 D-loop; other site 568816000558 H-loop/switch region; other site 568816000559 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 568816000560 V-type ATP synthase subunit I; Validated; Region: PRK05771 568816000561 V-type ATP synthase subunit K; Validated; Region: PRK06558 568816000562 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 568816000563 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 568816000564 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 568816000565 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 568816000566 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 568816000567 V-type ATP synthase subunit A; Provisional; Region: PRK04192 568816000568 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568816000569 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 568816000570 Walker A motif/ATP binding site; other site 568816000571 Walker B motif; other site 568816000572 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816000573 V-type ATP synthase subunit B; Provisional; Region: PRK04196 568816000574 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568816000575 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 568816000576 Walker A motif homologous position; other site 568816000577 Walker B motif; other site 568816000578 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816000579 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 568816000580 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 568816000581 active site 568816000582 catalytic triad [active] 568816000583 oxyanion hole [active] 568816000584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816000585 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 568816000586 active site 568816000587 phosphorylation site [posttranslational modification] 568816000588 intermolecular recognition site; other site 568816000589 dimerization interface [polypeptide binding]; other site 568816000590 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 568816000591 DNA binding site [nucleotide binding] 568816000592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816000593 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 568816000594 dimerization interface [polypeptide binding]; other site 568816000595 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 568816000596 dimer interface [polypeptide binding]; other site 568816000597 phosphorylation site [posttranslational modification] 568816000598 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 568816000599 ATP binding site [chemical binding]; other site 568816000600 Mg2+ binding site [ion binding]; other site 568816000601 G-X-G motif; other site 568816000602 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 568816000603 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 568816000604 FeS/SAM binding site; other site 568816000605 hypothetical protein; Provisional; Region: PRK03881 568816000606 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 568816000607 AMMECR1; Region: AMMECR1; pfam01871 568816000608 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 568816000609 Fe-S cluster binding site [ion binding]; other site 568816000610 active site 568816000611 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 568816000612 Protein of unknown function (DUF1312); Region: DUF1312; pfam07009 568816000613 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 568816000614 ApbE family; Region: ApbE; pfam02424 568816000615 ferredoxin; Validated; Region: PRK07118 568816000616 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 568816000617 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 568816000618 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 568816000619 electron transport complex RsxE subunit; Provisional; Region: PRK12405 568816000620 FMN-binding domain; Region: FMN_bind; cl01081 568816000621 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 568816000622 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 568816000623 SLBB domain; Region: SLBB; pfam10531 568816000624 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 568816000625 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816000626 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 568816000627 FeS/SAM binding site; other site 568816000628 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 568816000629 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 568816000630 NlpC/P60 family; Region: NLPC_P60; pfam00877 568816000631 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 568816000632 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 568816000633 Walker A motif; other site 568816000634 ATP binding site [chemical binding]; other site 568816000635 Walker B motif; other site 568816000636 arginine finger; other site 568816000637 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 568816000638 DNA-binding interface [nucleotide binding]; DNA binding site 568816000639 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 568816000640 S-adenosylmethionine binding site [chemical binding]; other site 568816000641 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 568816000642 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 568816000643 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 568816000644 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 568816000645 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 568816000646 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 568816000647 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 568816000648 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 568816000649 homodimer interface [polypeptide binding]; other site 568816000650 NADP binding site [chemical binding]; other site 568816000651 substrate binding site [chemical binding]; other site 568816000652 Predicted thioesterase [General function prediction only]; Region: COG5496 568816000653 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 568816000654 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 568816000655 acyl-activating enzyme (AAE) consensus motif; other site 568816000656 putative AMP binding site [chemical binding]; other site 568816000657 putative active site [active] 568816000658 putative CoA binding site [chemical binding]; other site 568816000659 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 568816000660 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568816000661 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 568816000662 Carbon starvation protein CstA; Region: CstA; pfam02554 568816000663 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 568816000664 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 568816000665 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 568816000666 homodimer interface [polypeptide binding]; other site 568816000667 substrate-cofactor binding pocket; other site 568816000668 catalytic residue [active] 568816000669 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 568816000670 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 568816000671 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568816000672 ligand binding site [chemical binding]; other site 568816000673 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568816000674 FAD binding domain; Region: FAD_binding_4; pfam01565 568816000675 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 568816000676 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568816000677 NAD-dependent deacetylase; Provisional; Region: PRK00481 568816000678 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 568816000679 seryl-tRNA synthetase; Provisional; Region: PRK05431 568816000680 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 568816000681 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 568816000682 dimer interface [polypeptide binding]; other site 568816000683 active site 568816000684 motif 1; other site 568816000685 motif 2; other site 568816000686 motif 3; other site 568816000687 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 568816000688 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 568816000689 active site 568816000690 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816000691 dimer interface [polypeptide binding]; other site 568816000692 catalytic residues [active] 568816000693 substrate binding site [chemical binding]; other site 568816000694 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 568816000695 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 568816000696 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 568816000697 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 568816000698 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 568816000699 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 568816000700 dimer interface [polypeptide binding]; other site 568816000701 conserved gate region; other site 568816000702 putative PBP binding loops; other site 568816000703 ABC-ATPase subunit interface; other site 568816000704 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 568816000705 dimer interface [polypeptide binding]; other site 568816000706 conserved gate region; other site 568816000707 putative PBP binding loops; other site 568816000708 ABC-ATPase subunit interface; other site 568816000709 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 568816000710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816000711 Walker A/P-loop; other site 568816000712 ATP binding site [chemical binding]; other site 568816000713 Q-loop/lid; other site 568816000714 ABC transporter signature motif; other site 568816000715 Walker B; other site 568816000716 D-loop; other site 568816000717 H-loop/switch region; other site 568816000718 TOBE domain; Region: TOBE_2; pfam08402 568816000719 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 568816000720 homotrimer interaction site [polypeptide binding]; other site 568816000721 putative active site [active] 568816000722 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 568816000723 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816000724 Soluble P-type ATPase [General function prediction only]; Region: COG4087 568816000725 putative transposase OrfB; Reviewed; Region: PHA02517 568816000726 HTH-like domain; Region: HTH_21; pfam13276 568816000727 Integrase core domain; Region: rve; pfam00665 568816000728 Integrase core domain; Region: rve_2; pfam13333 568816000729 agmatinase; Region: agmatinase; TIGR01230 568816000730 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 568816000731 oligomer interface [polypeptide binding]; other site 568816000732 active site 568816000733 Mn binding site [ion binding]; other site 568816000734 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568816000735 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568816000736 Bacterial transcriptional regulator; Region: IclR; pfam01614 568816000737 Uncharacterized conserved protein [Function unknown]; Region: COG4198 568816000738 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 568816000739 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 568816000740 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816000741 catalytic residue [active] 568816000742 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 568816000743 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 568816000744 tetramer interface [polypeptide binding]; other site 568816000745 catalytic Zn binding site [ion binding]; other site 568816000746 NADP binding site [chemical binding]; other site 568816000747 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 568816000748 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 568816000749 LemA family; Region: LemA; pfam04011 568816000750 Repair protein; Region: Repair_PSII; pfam04536 568816000751 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 568816000752 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 568816000753 FeS/SAM binding site; other site 568816000754 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 568816000755 putative transposase OrfB; Reviewed; Region: PHA02517 568816000756 HTH-like domain; Region: HTH_21; pfam13276 568816000757 Integrase core domain; Region: rve; pfam00665 568816000758 Integrase core domain; Region: rve_2; pfam13333 568816000759 ZIP Zinc transporter; Region: Zip; pfam02535 568816000760 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 568816000761 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 568816000762 metal-binding site [ion binding] 568816000763 GTPase CgtA; Reviewed; Region: obgE; PRK12297 568816000764 GTP1/OBG; Region: GTP1_OBG; pfam01018 568816000765 Obg GTPase; Region: Obg; cd01898 568816000766 G1 box; other site 568816000767 GTP/Mg2+ binding site [chemical binding]; other site 568816000768 Switch I region; other site 568816000769 G2 box; other site 568816000770 G3 box; other site 568816000771 Switch II region; other site 568816000772 G4 box; other site 568816000773 G5 box; other site 568816000774 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 568816000775 gamma-glutamyl kinase; Provisional; Region: PRK05429 568816000776 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 568816000777 nucleotide binding site [chemical binding]; other site 568816000778 homotetrameric interface [polypeptide binding]; other site 568816000779 putative phosphate binding site [ion binding]; other site 568816000780 putative allosteric binding site; other site 568816000781 PUA domain; Region: PUA; pfam01472 568816000782 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 568816000783 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 568816000784 putative catalytic cysteine [active] 568816000785 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568816000786 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568816000787 HlyD family secretion protein; Region: HlyD_3; pfam13437 568816000788 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 568816000789 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 568816000790 Walker A/P-loop; other site 568816000791 ATP binding site [chemical binding]; other site 568816000792 Q-loop/lid; other site 568816000793 ABC transporter signature motif; other site 568816000794 Walker B; other site 568816000795 D-loop; other site 568816000796 H-loop/switch region; other site 568816000797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 568816000798 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 568816000799 FtsX-like permease family; Region: FtsX; pfam02687 568816000800 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 568816000801 putative active site [active] 568816000802 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 568816000803 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 568816000804 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 568816000805 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 568816000806 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816000807 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816000808 metal binding site [ion binding]; metal-binding site 568816000809 dimer interface [polypeptide binding]; other site 568816000810 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816000811 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816000812 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 568816000813 putative active site [active] 568816000814 nucleotide binding site [chemical binding]; other site 568816000815 nudix motif; other site 568816000816 putative metal binding site [ion binding]; other site 568816000817 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 568816000818 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816000819 minor groove reading motif; other site 568816000820 helix-hairpin-helix signature motif; other site 568816000821 substrate binding pocket [chemical binding]; other site 568816000822 active site 568816000823 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 568816000824 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 568816000825 DNA binding and oxoG recognition site [nucleotide binding] 568816000826 FtsH Extracellular; Region: FtsH_ext; pfam06480 568816000827 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 568816000828 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 568816000829 Walker A motif; other site 568816000830 ATP binding site [chemical binding]; other site 568816000831 Walker B motif; other site 568816000832 arginine finger; other site 568816000833 Peptidase family M41; Region: Peptidase_M41; pfam01434 568816000834 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 568816000835 HutD; Region: HutD; cl01532 568816000836 glutamate formiminotransferase; Region: FtcD; TIGR02024 568816000837 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 568816000838 Formiminotransferase domain; Region: FTCD; pfam02971 568816000839 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 568816000840 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 568816000841 Potassium binding sites [ion binding]; other site 568816000842 Cesium cation binding sites [ion binding]; other site 568816000843 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 568816000844 PAS fold; Region: PAS; pfam00989 568816000845 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 568816000846 putative active site [active] 568816000847 heme pocket [chemical binding]; other site 568816000848 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 568816000849 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 568816000850 Walker A motif; other site 568816000851 ATP binding site [chemical binding]; other site 568816000852 Walker B motif; other site 568816000853 arginine finger; other site 568816000854 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 568816000855 BCCT family transporter; Region: BCCT; pfam02028 568816000856 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 568816000857 active sites [active] 568816000858 tetramer interface [polypeptide binding]; other site 568816000859 Predicted permease [General function prediction only]; Region: COG2056 568816000860 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 568816000861 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 568816000862 active sites [active] 568816000863 tetramer interface [polypeptide binding]; other site 568816000864 urocanate hydratase; Provisional; Region: PRK05414 568816000865 imidazolonepropionase; Validated; Region: PRK09356 568816000866 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 568816000867 active site 568816000868 Bacterial transcriptional activator domain; Region: BTAD; smart01043 568816000869 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 568816000870 binding surface 568816000871 TPR motif; other site 568816000872 AAA ATPase domain; Region: AAA_16; pfam13191 568816000873 Predicted ATPase [General function prediction only]; Region: COG3899 568816000874 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 568816000875 binding surface 568816000876 TPR motif; other site 568816000877 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816000878 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816000879 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 568816000880 binding surface 568816000881 TPR motif; other site 568816000882 TPR repeat; Region: TPR_11; pfam13414 568816000883 DRTGG domain; Region: DRTGG; pfam07085 568816000884 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 568816000885 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 568816000886 ATP binding site [chemical binding]; other site 568816000887 Mg2+ binding site [ion binding]; other site 568816000888 G-X-G motif; other site 568816000889 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 568816000890 4Fe-4S binding domain; Region: Fer4; cl02805 568816000891 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816000892 Putative Fe-S cluster; Region: FeS; cl17515 568816000893 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 568816000894 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 568816000895 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 568816000896 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 568816000897 carboxyltransferase (CT) interaction site; other site 568816000898 biotinylation site [posttranslational modification]; other site 568816000899 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 568816000900 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816000901 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816000902 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816000903 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 568816000904 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 568816000905 Maf-like protein; Region: Maf; pfam02545 568816000906 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 568816000907 active site 568816000908 dimer interface [polypeptide binding]; other site 568816000909 hypothetical protein; Reviewed; Region: PRK00024 568816000910 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 568816000911 MPN+ (JAMM) motif; other site 568816000912 Zinc-binding site [ion binding]; other site 568816000913 rod shape-determining protein MreB; Provisional; Region: PRK13927 568816000914 MreB and similar proteins; Region: MreB_like; cd10225 568816000915 nucleotide binding site [chemical binding]; other site 568816000916 Mg binding site [ion binding]; other site 568816000917 putative protofilament interaction site [polypeptide binding]; other site 568816000918 RodZ interaction site [polypeptide binding]; other site 568816000919 rod shape-determining protein MreC; Provisional; Region: PRK13922 568816000920 Protein of unknown function (DUF904); Region: DUF904; pfam06005 568816000921 rod shape-determining protein MreC; Region: MreC; pfam04085 568816000922 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 568816000923 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 568816000924 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 568816000925 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 568816000926 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 568816000927 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 568816000928 FeS/SAM binding site; other site 568816000929 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 568816000930 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 568816000931 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 568816000932 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 568816000933 homodimer interface [polypeptide binding]; other site 568816000934 oligonucleotide binding site [chemical binding]; other site 568816000935 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 568816000936 active site 568816000937 NTP binding site [chemical binding]; other site 568816000938 metal binding triad [ion binding]; metal-binding site 568816000939 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 568816000940 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 568816000941 Coenzyme A transferase; Region: CoA_trans; pfam01144 568816000942 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 568816000943 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 568816000944 nucleotide binding site [chemical binding]; other site 568816000945 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 568816000946 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 568816000947 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 568816000948 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 568816000949 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 568816000950 ATP cone domain; Region: ATP-cone; pfam03477 568816000951 Class III ribonucleotide reductase; Region: RNR_III; cd01675 568816000952 effector binding site; other site 568816000953 active site 568816000954 Zn binding site [ion binding]; other site 568816000955 glycine loop; other site 568816000956 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 568816000957 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 568816000958 FeS/SAM binding site; other site 568816000959 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816000960 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 568816000961 metal binding site [ion binding]; metal-binding site 568816000962 dimer interface [polypeptide binding]; other site 568816000963 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 568816000964 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 568816000965 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 568816000966 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 568816000967 active site 568816000968 catalytic triad [active] 568816000969 oxyanion hole [active] 568816000970 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 568816000971 4Fe-4S binding domain; Region: Fer4; pfam00037 568816000972 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 568816000973 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 568816000974 Na2 binding site [ion binding]; other site 568816000975 putative substrate binding site 1 [chemical binding]; other site 568816000976 Na binding site 1 [ion binding]; other site 568816000977 putative substrate binding site 2 [chemical binding]; other site 568816000978 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 568816000979 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 568816000980 Protein of unknown function (DUF441); Region: DUF441; pfam04284 568816000981 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 568816000982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 568816000983 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816000984 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 568816000985 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 568816000986 metal binding site 2 [ion binding]; metal-binding site 568816000987 putative DNA binding helix; other site 568816000988 metal binding site 1 [ion binding]; metal-binding site 568816000989 dimer interface [polypeptide binding]; other site 568816000990 structural Zn2+ binding site [ion binding]; other site 568816000991 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 568816000992 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 568816000993 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 568816000994 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 568816000995 protein binding site [polypeptide binding]; other site 568816000996 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 568816000997 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 568816000998 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 568816000999 active site 568816001000 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 568816001001 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 568816001002 Uncharacterized conserved protein [Function unknown]; Region: COG2006 568816001003 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 568816001004 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 568816001005 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 568816001006 putative active site [active] 568816001007 (T/H)XGH motif; other site 568816001008 putative transposase OrfB; Reviewed; Region: PHA02517 568816001009 HTH-like domain; Region: HTH_21; pfam13276 568816001010 Integrase core domain; Region: rve; pfam00665 568816001011 Integrase core domain; Region: rve_2; pfam13333 568816001012 S-adenosylmethionine synthetase; Validated; Region: PRK05250 568816001013 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 568816001014 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 568816001015 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 568816001016 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 568816001017 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 568816001018 ATP binding site [chemical binding]; other site 568816001019 putative Mg++ binding site [ion binding]; other site 568816001020 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 568816001021 nucleotide binding region [chemical binding]; other site 568816001022 ATP-binding site [chemical binding]; other site 568816001023 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 568816001024 active site 568816001025 catalytic residues [active] 568816001026 metal binding site [ion binding]; metal-binding site 568816001027 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 568816001028 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 568816001029 putative active site [active] 568816001030 substrate binding site [chemical binding]; other site 568816001031 putative cosubstrate binding site; other site 568816001032 catalytic site [active] 568816001033 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 568816001034 substrate binding site [chemical binding]; other site 568816001035 Protein of unknown function DUF116; Region: DUF116; pfam01976 568816001036 16S rRNA methyltransferase B; Provisional; Region: PRK14902 568816001037 NusB family; Region: NusB; pfam01029 568816001038 putative RNA binding site [nucleotide binding]; other site 568816001039 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 568816001040 S-adenosylmethionine binding site [chemical binding]; other site 568816001041 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 568816001042 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 568816001043 active site 568816001044 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 568816001045 Catalytic domain of Protein Kinases; Region: PKc; cd00180 568816001046 active site 568816001047 ATP binding site [chemical binding]; other site 568816001048 substrate binding site [chemical binding]; other site 568816001049 activation loop (A-loop); other site 568816001050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 568816001051 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 568816001052 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 568816001053 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 568816001054 GTPase RsgA; Reviewed; Region: PRK00098 568816001055 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 568816001056 RNA binding site [nucleotide binding]; other site 568816001057 homodimer interface [polypeptide binding]; other site 568816001058 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 568816001059 GTPase/Zn-binding domain interface [polypeptide binding]; other site 568816001060 GTP/Mg2+ binding site [chemical binding]; other site 568816001061 G4 box; other site 568816001062 G5 box; other site 568816001063 G1 box; other site 568816001064 Switch I region; other site 568816001065 G2 box; other site 568816001066 G3 box; other site 568816001067 Switch II region; other site 568816001068 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 568816001069 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 568816001070 substrate binding site [chemical binding]; other site 568816001071 hexamer interface [polypeptide binding]; other site 568816001072 metal binding site [ion binding]; metal-binding site 568816001073 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568816001074 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 568816001075 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 568816001076 catalytic motif [active] 568816001077 Zn binding site [ion binding]; other site 568816001078 RibD C-terminal domain; Region: RibD_C; cl17279 568816001079 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 568816001080 Lumazine binding domain; Region: Lum_binding; pfam00677 568816001081 Lumazine binding domain; Region: Lum_binding; pfam00677 568816001082 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 568816001083 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 568816001084 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 568816001085 dimerization interface [polypeptide binding]; other site 568816001086 active site 568816001087 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 568816001088 homopentamer interface [polypeptide binding]; other site 568816001089 active site 568816001090 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 568816001091 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 568816001092 dimerization interface [polypeptide binding]; other site 568816001093 domain crossover interface; other site 568816001094 redox-dependent activation switch; other site 568816001095 recombinase A; Provisional; Region: recA; PRK09354 568816001096 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 568816001097 hexamer interface [polypeptide binding]; other site 568816001098 Walker A motif; other site 568816001099 ATP binding site [chemical binding]; other site 568816001100 Walker B motif; other site 568816001101 recombination regulator RecX; Reviewed; Region: recX; PRK00117 568816001102 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 568816001103 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 568816001104 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001105 Zn2+ binding site [ion binding]; other site 568816001106 Mg2+ binding site [ion binding]; other site 568816001107 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 568816001108 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 568816001109 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 568816001110 uridine phosphorylase; Provisional; Region: PRK11178 568816001111 phosphopentomutase; Provisional; Region: PRK05362 568816001112 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 568816001113 hybrid cluster protein; Provisional; Region: PRK05290 568816001114 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 568816001115 ACS interaction site; other site 568816001116 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 568816001117 hybrid metal cluster; other site 568816001118 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 568816001119 fructuronate transporter; Provisional; Region: PRK10034; cl15264 568816001120 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 568816001121 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 568816001122 Walker A/P-loop; other site 568816001123 ATP binding site [chemical binding]; other site 568816001124 Q-loop/lid; other site 568816001125 ABC transporter signature motif; other site 568816001126 Walker B; other site 568816001127 D-loop; other site 568816001128 H-loop/switch region; other site 568816001129 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 568816001130 FeS assembly protein SufB; Region: sufB; TIGR01980 568816001131 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 568816001132 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 568816001133 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 568816001134 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 568816001135 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816001136 catalytic residue [active] 568816001137 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 568816001138 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 568816001139 trimerization site [polypeptide binding]; other site 568816001140 active site 568816001141 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 568816001142 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 568816001143 RNase E interface [polypeptide binding]; other site 568816001144 trimer interface [polypeptide binding]; other site 568816001145 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 568816001146 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 568816001147 RNase E interface [polypeptide binding]; other site 568816001148 trimer interface [polypeptide binding]; other site 568816001149 active site 568816001150 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 568816001151 putative nucleic acid binding region [nucleotide binding]; other site 568816001152 G-X-X-G motif; other site 568816001153 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 568816001154 RNA binding site [nucleotide binding]; other site 568816001155 domain interface; other site 568816001156 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 568816001157 HPr interaction site; other site 568816001158 glycerol kinase (GK) interaction site [polypeptide binding]; other site 568816001159 active site 568816001160 phosphorylation site [posttranslational modification] 568816001161 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 568816001162 Double zinc ribbon; Region: DZR; pfam12773 568816001163 ribosomal protein L28; Region: L28; TIGR00009 568816001164 Y-family of DNA polymerases; Region: PolY; cl12025 568816001165 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 568816001166 DNA binding site [nucleotide binding] 568816001167 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 568816001168 generic binding surface I; other site 568816001169 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 568816001170 ATP binding site [chemical binding]; other site 568816001171 putative Mg++ binding site [ion binding]; other site 568816001172 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 568816001173 nucleotide binding region [chemical binding]; other site 568816001174 ATP-binding site [chemical binding]; other site 568816001175 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 568816001176 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 568816001177 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 568816001178 elongation factor G; Reviewed; Region: PRK12740 568816001179 G1 box; other site 568816001180 putative GEF interaction site [polypeptide binding]; other site 568816001181 GTP/Mg2+ binding site [chemical binding]; other site 568816001182 Switch I region; other site 568816001183 G2 box; other site 568816001184 G3 box; other site 568816001185 Switch II region; other site 568816001186 G4 box; other site 568816001187 G5 box; other site 568816001188 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 568816001189 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 568816001190 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 568816001191 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 568816001192 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 568816001193 TPP-binding site [chemical binding]; other site 568816001194 dimer interface [polypeptide binding]; other site 568816001195 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 568816001196 PYR/PP interface [polypeptide binding]; other site 568816001197 dimer interface [polypeptide binding]; other site 568816001198 TPP binding site [chemical binding]; other site 568816001199 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816001200 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 568816001201 dimer interface [polypeptide binding]; other site 568816001202 substrate binding site [chemical binding]; other site 568816001203 ATP binding site [chemical binding]; other site 568816001204 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 568816001205 substrate binding site [chemical binding]; other site 568816001206 multimerization interface [polypeptide binding]; other site 568816001207 ATP binding site [chemical binding]; other site 568816001208 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 568816001209 thiamine phosphate binding site [chemical binding]; other site 568816001210 active site 568816001211 pyrophosphate binding site [ion binding]; other site 568816001212 putative DNA-binding protein; Validated; Region: PRK00118 568816001213 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 568816001214 signal recognition particle protein; Provisional; Region: PRK10867 568816001215 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 568816001216 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 568816001217 P loop; other site 568816001218 GTP binding site [chemical binding]; other site 568816001219 Signal peptide binding domain; Region: SRP_SPB; pfam02978 568816001220 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 568816001221 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 568816001222 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 568816001223 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 568816001224 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 568816001225 RimM N-terminal domain; Region: RimM; pfam01782 568816001226 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 568816001227 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 568816001228 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 568816001229 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 568816001230 Catalytic site [active] 568816001231 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 568816001232 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 568816001233 GTP/Mg2+ binding site [chemical binding]; other site 568816001234 G4 box; other site 568816001235 G5 box; other site 568816001236 G1 box; other site 568816001237 Switch I region; other site 568816001238 G2 box; other site 568816001239 G3 box; other site 568816001240 Switch II region; other site 568816001241 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 568816001242 RNA/DNA hybrid binding site [nucleotide binding]; other site 568816001243 active site 568816001244 hypothetical protein; Reviewed; Region: PRK12497 568816001245 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 568816001246 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 568816001247 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 568816001248 Walker A motif; other site 568816001249 ATP binding site [chemical binding]; other site 568816001250 Walker B motif; other site 568816001251 arginine finger; other site 568816001252 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 568816001253 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 568816001254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816001255 homodimer interface [polypeptide binding]; other site 568816001256 catalytic residue [active] 568816001257 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 568816001258 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 568816001259 active site 568816001260 aspartate aminotransferase; Provisional; Region: PRK07568 568816001261 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 568816001262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816001263 homodimer interface [polypeptide binding]; other site 568816001264 catalytic residue [active] 568816001265 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 568816001266 DEAD-like helicases superfamily; Region: DEXDc; smart00487 568816001267 ATP binding site [chemical binding]; other site 568816001268 Mg++ binding site [ion binding]; other site 568816001269 motif III; other site 568816001270 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 568816001271 nucleotide binding region [chemical binding]; other site 568816001272 ATP-binding site [chemical binding]; other site 568816001273 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 568816001274 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816001275 active site 568816001276 HIGH motif; other site 568816001277 nucleotide binding site [chemical binding]; other site 568816001278 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568816001279 active site 568816001280 KMSKS motif; other site 568816001281 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 568816001282 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 568816001283 nucleotide binding site [chemical binding]; other site 568816001284 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 568816001285 23S rRNA interface [nucleotide binding]; other site 568816001286 L3 interface [polypeptide binding]; other site 568816001287 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 568816001288 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 568816001289 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 568816001290 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 568816001291 Walker A/P-loop; other site 568816001292 ATP binding site [chemical binding]; other site 568816001293 Q-loop/lid; other site 568816001294 ABC transporter signature motif; other site 568816001295 Walker B; other site 568816001296 D-loop; other site 568816001297 H-loop/switch region; other site 568816001298 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 568816001299 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 568816001300 Walker A/P-loop; other site 568816001301 ATP binding site [chemical binding]; other site 568816001302 Q-loop/lid; other site 568816001303 ABC transporter signature motif; other site 568816001304 Walker B; other site 568816001305 D-loop; other site 568816001306 H-loop/switch region; other site 568816001307 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 568816001308 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 568816001309 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 568816001310 dimerization interface 3.5A [polypeptide binding]; other site 568816001311 active site 568816001312 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 568816001313 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 568816001314 N-terminal plug; other site 568816001315 ligand-binding site [chemical binding]; other site 568816001316 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 568816001317 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 568816001318 intersubunit interface [polypeptide binding]; other site 568816001319 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 568816001320 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 568816001321 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 568816001322 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 568816001323 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 568816001324 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 568816001325 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 568816001326 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 568816001327 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 568816001328 (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 568816001329 active site 568816001330 catalytic site [active] 568816001331 BioY family; Region: BioY; pfam02632 568816001332 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 568816001333 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 568816001334 dimer interface [polypeptide binding]; other site 568816001335 active site 568816001336 acyl-CoA synthetase; Validated; Region: PRK07638 568816001337 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568816001338 AMP binding site [chemical binding]; other site 568816001339 active site 568816001340 acyl-activating enzyme (AAE) consensus motif; other site 568816001341 CoA binding site [chemical binding]; other site 568816001342 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 568816001343 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 568816001344 homodimer interaction site [polypeptide binding]; other site 568816001345 cofactor binding site; other site 568816001346 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 568816001347 active site flap/lid [active] 568816001348 nucleophilic elbow; other site 568816001349 catalytic triad [active] 568816001350 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 568816001351 active site 568816001352 Domain of unknown function (DUF386); Region: DUF386; cl01047 568816001353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001354 Zn2+ binding site [ion binding]; other site 568816001355 Mg2+ binding site [ion binding]; other site 568816001356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816001357 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816001358 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816001360 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816001361 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001362 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 568816001363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816001365 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 568816001366 dimerization interface [polypeptide binding]; other site 568816001367 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 568816001368 Predicted PP-loop superfamily ATPase [General function prediction only]; Region: COG0603 568816001369 Ligand Binding Site [chemical binding]; other site 568816001370 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 568816001371 active site 568816001372 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 568816001373 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 568816001374 FeS/SAM binding site; other site 568816001375 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 568816001376 Beta-lactamase; Region: Beta-lactamase; pfam00144 568816001377 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 568816001378 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 568816001379 active site 568816001380 Predicted integral membrane protein [Function unknown]; Region: COG5505 568816001381 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 568816001382 glutamine synthetase, type I; Region: GlnA; TIGR00653 568816001383 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 568816001384 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 568816001385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 568816001386 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 568816001387 CoenzymeA binding site [chemical binding]; other site 568816001388 subunit interaction site [polypeptide binding]; other site 568816001389 PHB binding site; other site 568816001390 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568816001391 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568816001392 active site 568816001393 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 568816001394 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 568816001395 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 568816001396 active site 568816001397 substrate-binding site [chemical binding]; other site 568816001398 metal-binding site [ion binding] 568816001399 ATP binding site [chemical binding]; other site 568816001400 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 568816001401 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 568816001402 Glycoprotease family; Region: Peptidase_M22; pfam00814 568816001403 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 568816001404 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816001405 Coenzyme A binding pocket [chemical binding]; other site 568816001406 UGMP family protein; Validated; Region: PRK09604 568816001407 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 568816001408 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 568816001409 non-specific DNA binding site [nucleotide binding]; other site 568816001410 salt bridge; other site 568816001411 sequence-specific DNA binding site [nucleotide binding]; other site 568816001412 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001413 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816001415 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 568816001416 Bacterial sugar transferase; Region: Bac_transf; pfam02397 568816001417 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 568816001418 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 568816001419 active site 568816001420 tetramer interface; other site 568816001421 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 568816001422 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 568816001423 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568816001424 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 568816001425 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816001426 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816001427 dimer interface [polypeptide binding]; other site 568816001428 active site 568816001429 metal binding site [ion binding]; metal-binding site 568816001430 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 568816001431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816001432 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816001433 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568816001434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568816001435 active site 568816001436 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 568816001437 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 568816001438 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 568816001439 Rubredoxin; Region: Rubredoxin; pfam00301 568816001440 iron binding site [ion binding]; other site 568816001441 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 568816001442 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 568816001443 G1 box; other site 568816001444 GTP/Mg2+ binding site [chemical binding]; other site 568816001445 Switch I region; other site 568816001446 G2 box; other site 568816001447 G3 box; other site 568816001448 Switch II region; other site 568816001449 G4 box; other site 568816001450 G5 box; other site 568816001451 Nucleoside recognition; Region: Gate; pfam07670 568816001452 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 568816001453 Nucleoside recognition; Region: Gate; pfam07670 568816001454 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 568816001455 FeoA domain; Region: FeoA; pfam04023 568816001456 Domain of unknown function (DUF368); Region: DUF368; pfam04018 568816001457 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 568816001458 active site 568816001459 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 568816001460 FMN binding site [chemical binding]; other site 568816001461 dimer interface [polypeptide binding]; other site 568816001462 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 568816001463 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 568816001464 Ligand Binding Site [chemical binding]; other site 568816001465 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 568816001466 Part of AAA domain; Region: AAA_19; pfam13245 568816001467 Family description; Region: UvrD_C_2; pfam13538 568816001468 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 568816001469 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 568816001470 nucleotide binding pocket [chemical binding]; other site 568816001471 K-X-D-G motif; other site 568816001472 catalytic site [active] 568816001473 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 568816001474 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 568816001475 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 568816001476 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 568816001477 Dimer interface [polypeptide binding]; other site 568816001478 Predicted permeases [General function prediction only]; Region: COG0679 568816001479 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 568816001480 active site 568816001481 catalytic site [active] 568816001482 substrate binding site [chemical binding]; other site 568816001483 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 568816001484 Carbon starvation protein CstA; Region: CstA; pfam02554 568816001485 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 568816001486 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 568816001487 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 568816001488 LDH/MDH dimer interface [polypeptide binding]; other site 568816001489 NAD(P) binding site [chemical binding]; other site 568816001490 substrate binding site [chemical binding]; other site 568816001491 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 568816001492 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 568816001493 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 568816001494 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 568816001495 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 568816001496 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 568816001497 putative substrate translocation pore; other site 568816001498 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 568816001499 active site 568816001500 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 568816001501 PhoH-like protein; Region: PhoH; pfam02562 568816001502 metal-binding heat shock protein; Provisional; Region: PRK00016 568816001503 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 568816001504 active site 568816001505 catalytic motif [active] 568816001506 Zn binding site [ion binding]; other site 568816001507 GTPase Era; Reviewed; Region: era; PRK00089 568816001508 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 568816001509 G1 box; other site 568816001510 GTP/Mg2+ binding site [chemical binding]; other site 568816001511 Switch I region; other site 568816001512 G2 box; other site 568816001513 Switch II region; other site 568816001514 G3 box; other site 568816001515 G4 box; other site 568816001516 G5 box; other site 568816001517 KH domain; Region: KH_2; pfam07650 568816001518 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 568816001519 Domain of unknown function DUF21; Region: DUF21; pfam01595 568816001520 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 568816001521 Transporter associated domain; Region: CorC_HlyC; smart01091 568816001522 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 568816001523 Recombination protein O N terminal; Region: RecO_N; pfam11967 568816001524 Recombination protein O C terminal; Region: RecO_C; pfam02565 568816001525 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 568816001526 active site 568816001527 putative catalytic site [active] 568816001528 DNA binding site [nucleotide binding] 568816001529 putative phosphate binding site [ion binding]; other site 568816001530 metal binding site A [ion binding]; metal-binding site 568816001531 AP binding site [nucleotide binding]; other site 568816001532 metal binding site B [ion binding]; metal-binding site 568816001533 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 568816001534 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 568816001535 nudix motif; other site 568816001536 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 568816001537 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 568816001538 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816001539 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 568816001540 active site 568816001541 metal binding site [ion binding]; metal-binding site 568816001542 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 568816001543 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 568816001544 HIGH motif; other site 568816001545 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568816001546 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 568816001547 active site 568816001548 KMSKS motif; other site 568816001549 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 568816001550 tRNA binding surface [nucleotide binding]; other site 568816001551 SLBB domain; Region: SLBB; pfam10531 568816001552 comEA protein; Region: comE; TIGR01259 568816001553 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 568816001554 Competence protein; Region: Competence; pfam03772 568816001555 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 568816001556 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 568816001557 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 568816001558 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 568816001559 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 568816001560 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568816001561 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816001562 Uncharacterized conserved protein [Function unknown]; Region: COG1284 568816001563 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816001564 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816001565 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 568816001566 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 568816001567 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 568816001568 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 568816001569 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568816001570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816001571 DNA-binding site [nucleotide binding]; DNA binding site 568816001572 FCD domain; Region: FCD; pfam07729 568816001573 pur operon repressor; Provisional; Region: PRK09213 568816001574 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 568816001575 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001576 active site 568816001577 threonine dehydratase; Provisional; Region: PRK08198 568816001578 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 568816001579 tetramer interface [polypeptide binding]; other site 568816001580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816001581 catalytic residue [active] 568816001582 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 568816001583 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 568816001584 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 568816001585 Substrate binding site; other site 568816001586 Mg++ binding site; other site 568816001587 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 568816001588 active site 568816001589 substrate binding site [chemical binding]; other site 568816001590 CoA binding site [chemical binding]; other site 568816001591 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 568816001592 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 568816001593 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001594 active site 568816001595 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 568816001596 putative active site [active] 568816001597 catalytic residue [active] 568816001598 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 568816001599 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 568816001600 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 568816001601 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 568816001602 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816001603 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816001604 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 568816001605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816001607 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 568816001608 dimerization interface [polypeptide binding]; other site 568816001609 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 568816001610 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 568816001611 peptide chain release factor 1; Validated; Region: prfA; PRK00591 568816001612 This domain is found in peptide chain release factors; Region: PCRF; smart00937 568816001613 RF-1 domain; Region: RF-1; pfam00472 568816001614 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 568816001615 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 568816001616 S-adenosylmethionine binding site [chemical binding]; other site 568816001617 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 568816001618 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 568816001619 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 568816001620 hypothetical protein; Provisional; Region: PRK13690 568816001621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001622 active site 568816001623 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 568816001624 catalytic motif [active] 568816001625 Zn binding site [ion binding]; other site 568816001626 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 568816001627 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 568816001628 tartrate dehydrogenase; Provisional; Region: PRK08194 568816001629 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 568816001630 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 568816001631 transmembrane helices; other site 568816001632 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568816001633 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 568816001634 Ligand Binding Site [chemical binding]; other site 568816001635 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 568816001636 Ligand Binding Site [chemical binding]; other site 568816001637 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 568816001638 Ligand Binding Site [chemical binding]; other site 568816001639 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 568816001640 Ligand Binding Site [chemical binding]; other site 568816001641 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 568816001642 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816001643 active site 568816001644 HIGH motif; other site 568816001645 nucleotide binding site [chemical binding]; other site 568816001646 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568816001647 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 568816001648 active site 568816001649 KMSKS motif; other site 568816001650 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 568816001651 tRNA binding surface [nucleotide binding]; other site 568816001652 anticodon binding site; other site 568816001653 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 568816001654 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 568816001655 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816001656 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816001657 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 568816001658 O-Antigen ligase; Region: Wzy_C; cl04850 568816001659 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 568816001660 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 568816001661 citrate lyase subunit gamma; Provisional; Region: PRK13253 568816001662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816001664 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 568816001665 dimerization interface [polypeptide binding]; other site 568816001666 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 568816001667 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 568816001668 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 568816001669 Citrate transporter; Region: CitMHS; pfam03600 568816001670 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 568816001671 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 568816001672 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 568816001673 hypothetical protein; Provisional; Region: PRK11622 568816001674 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 568816001675 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 568816001676 dimer interface [polypeptide binding]; other site 568816001677 conserved gate region; other site 568816001678 putative PBP binding loops; other site 568816001679 ABC-ATPase subunit interface; other site 568816001680 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 568816001681 dimer interface [polypeptide binding]; other site 568816001682 conserved gate region; other site 568816001683 putative PBP binding loops; other site 568816001684 ABC-ATPase subunit interface; other site 568816001685 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 568816001686 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816001687 Walker A/P-loop; other site 568816001688 ATP binding site [chemical binding]; other site 568816001689 Q-loop/lid; other site 568816001690 ABC transporter signature motif; other site 568816001691 Walker B; other site 568816001692 D-loop; other site 568816001693 H-loop/switch region; other site 568816001694 TOBE domain; Region: TOBE_2; pfam08402 568816001695 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 568816001696 HD domain; Region: HD_3; pfam13023 568816001697 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 568816001698 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 568816001699 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 568816001700 NAD(P) binding site [chemical binding]; other site 568816001701 Predicted transcriptional regulators [Transcription]; Region: COG1733 568816001702 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 568816001703 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 568816001704 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816001705 metal binding site [ion binding]; metal-binding site 568816001706 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816001707 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568816001708 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 568816001709 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816001710 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816001711 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568816001712 Predicted membrane protein [Function unknown]; Region: COG1288 568816001713 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 568816001714 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 568816001715 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816001716 metal binding site [ion binding]; metal-binding site 568816001717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816001719 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 568816001720 dimerization interface [polypeptide binding]; other site 568816001721 aconitate hydratase; Validated; Region: PRK07229 568816001722 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816001723 substrate binding site [chemical binding]; other site 568816001724 ligand binding site [chemical binding]; other site 568816001725 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 568816001726 substrate binding site [chemical binding]; other site 568816001727 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 568816001728 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 568816001729 Citrate transporter; Region: CitMHS; pfam03600 568816001730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816001732 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 568816001733 dimerization interface [polypeptide binding]; other site 568816001734 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 568816001735 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 568816001736 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816001737 catalytic residue [active] 568816001738 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 568816001739 FMN binding site [chemical binding]; other site 568816001740 dimer interface [polypeptide binding]; other site 568816001741 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568816001742 4Fe-4S binding domain; Region: Fer4_6; pfam12837 568816001743 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 568816001744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816001745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816001746 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 568816001747 dimerization interface [polypeptide binding]; other site 568816001748 Predicted flavoprotein [General function prediction only]; Region: COG0431 568816001749 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568816001750 CrcB-like protein; Region: CRCB; cl09114 568816001751 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816001752 MarR family; Region: MarR; pfam01047 568816001753 Rubrerythrin [Energy production and conversion]; Region: COG1592 568816001754 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 568816001755 diiron binding motif [ion binding]; other site 568816001756 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 568816001757 iron binding site [ion binding]; other site 568816001758 glutamate racemase; Provisional; Region: PRK00865 568816001759 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 568816001760 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816001761 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816001762 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 568816001763 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 568816001764 metal binding site [ion binding]; metal-binding site 568816001765 dimer interface [polypeptide binding]; other site 568816001766 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 568816001767 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 568816001768 teramer interface [polypeptide binding]; other site 568816001769 active site 568816001770 FMN binding site [chemical binding]; other site 568816001771 catalytic residues [active] 568816001772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 568816001773 Nucleoside recognition; Region: Gate; pfam07670 568816001774 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568816001775 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568816001776 Bacterial transcriptional regulator; Region: IclR; pfam01614 568816001777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 568816001778 Nucleoside recognition; Region: Gate; pfam07670 568816001779 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 568816001780 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568816001781 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 568816001782 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 568816001783 dimer interface [polypeptide binding]; other site 568816001784 PYR/PP interface [polypeptide binding]; other site 568816001785 TPP binding site [chemical binding]; other site 568816001786 substrate binding site [chemical binding]; other site 568816001787 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816001788 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 568816001789 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 568816001790 TPP-binding site [chemical binding]; other site 568816001791 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 568816001792 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 568816001793 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568816001794 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568816001795 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 568816001796 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 568816001797 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 568816001798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 568816001799 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 568816001800 Walker A/P-loop; other site 568816001801 ATP binding site [chemical binding]; other site 568816001802 Q-loop/lid; other site 568816001803 ABC transporter signature motif; other site 568816001804 Walker B; other site 568816001805 D-loop; other site 568816001806 H-loop/switch region; other site 568816001807 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 568816001808 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 568816001809 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 568816001810 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 568816001811 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 568816001812 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 568816001813 Ligand binding site; other site 568816001814 oligomer interface; other site 568816001815 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 568816001816 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 568816001817 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 568816001818 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 568816001819 putative active site [active] 568816001820 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 568816001821 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 568816001822 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 568816001823 active site 568816001824 motif I; other site 568816001825 motif II; other site 568816001826 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 568816001827 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 568816001828 putative acyl-acceptor binding pocket; other site 568816001829 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 568816001830 OstA-like protein; Region: OstA; cl00844 568816001831 OstA-like protein; Region: OstA; cl00844 568816001832 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 568816001833 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 568816001834 Walker A/P-loop; other site 568816001835 ATP binding site [chemical binding]; other site 568816001836 Q-loop/lid; other site 568816001837 ABC transporter signature motif; other site 568816001838 Walker B; other site 568816001839 D-loop; other site 568816001840 H-loop/switch region; other site 568816001841 Predicted permeases [General function prediction only]; Region: COG0795 568816001842 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 568816001843 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 568816001844 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 568816001845 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 568816001846 NAD binding site [chemical binding]; other site 568816001847 ligand binding site [chemical binding]; other site 568816001848 catalytic site [active] 568816001849 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 568816001850 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 568816001851 DHH family; Region: DHH; pfam01368 568816001852 DHHA1 domain; Region: DHHA1; pfam02272 568816001853 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 568816001854 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001855 Zn2+ binding site [ion binding]; other site 568816001856 Mg2+ binding site [ion binding]; other site 568816001857 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 568816001858 synthetase active site [active] 568816001859 NTP binding site [chemical binding]; other site 568816001860 metal binding site [ion binding]; metal-binding site 568816001861 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 568816001862 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 568816001863 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 568816001864 dimerization interface [polypeptide binding]; other site 568816001865 putative tRNAtyr binding site [nucleotide binding]; other site 568816001866 putative active site [active] 568816001867 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816001868 Domain of unknown function DUF20; Region: UPF0118; pfam01594 568816001869 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 568816001870 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 568816001871 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 568816001872 dimer interface [polypeptide binding]; other site 568816001873 motif 1; other site 568816001874 active site 568816001875 motif 2; other site 568816001876 motif 3; other site 568816001877 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 568816001878 anticodon binding site; other site 568816001879 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 568816001880 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 568816001881 dimer interface [polypeptide binding]; other site 568816001882 anticodon binding site; other site 568816001883 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 568816001884 homodimer interface [polypeptide binding]; other site 568816001885 motif 1; other site 568816001886 active site 568816001887 motif 2; other site 568816001888 GAD domain; Region: GAD; pfam02938 568816001889 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 568816001890 motif 3; other site 568816001891 lipoprotein signal peptidase; Provisional; Region: PRK14787 568816001892 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 568816001893 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 568816001894 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 568816001895 RNA binding surface [nucleotide binding]; other site 568816001896 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 568816001897 active site 568816001898 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 568816001899 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816001900 active site 568816001901 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 568816001902 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 568816001903 Walker A/P-loop; other site 568816001904 ATP binding site [chemical binding]; other site 568816001905 Q-loop/lid; other site 568816001906 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 568816001907 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 568816001908 Q-loop/lid; other site 568816001909 ABC transporter signature motif; other site 568816001910 Walker B; other site 568816001911 D-loop; other site 568816001912 H-loop/switch region; other site 568816001913 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 568816001914 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 568816001915 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 568816001916 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 568816001917 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 568816001918 catalytic residues [active] 568816001919 Predicted transcriptional regulator [Transcription]; Region: COG1959 568816001920 Transcriptional regulator; Region: Rrf2; pfam02082 568816001921 Uncharacterized conserved protein [Function unknown]; Region: COG2968 568816001922 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 568816001923 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 568816001924 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568816001925 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568816001926 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568816001927 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568816001928 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568816001929 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 568816001930 FMN binding site [chemical binding]; other site 568816001931 dimer interface [polypeptide binding]; other site 568816001932 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816001933 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816001934 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 568816001935 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 568816001936 non-specific DNA binding site [nucleotide binding]; other site 568816001937 salt bridge; other site 568816001938 sequence-specific DNA binding site [nucleotide binding]; other site 568816001939 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 568816001940 putative active site [active] 568816001941 catalytic site [active] 568816001942 DEAD-like helicases superfamily; Region: DEXDc; smart00487 568816001943 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 568816001944 ATP binding site [chemical binding]; other site 568816001945 putative Mg++ binding site [ion binding]; other site 568816001946 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 568816001947 nucleotide binding region [chemical binding]; other site 568816001948 ATP-binding site [chemical binding]; other site 568816001949 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 568816001950 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 568816001951 DNA methylase; Region: N6_N4_Mtase; pfam01555 568816001952 DNA methylase; Region: N6_N4_Mtase; cl17433 568816001953 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 568816001954 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 568816001955 Restriction endonuclease [Defense mechanisms]; Region: COG3587 568816001956 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 568816001957 ATP binding site [chemical binding]; other site 568816001958 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 568816001959 Low molecular weight phosphatase family; Region: LMWPc; cd00115 568816001960 active site 568816001961 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001962 Zn2+ binding site [ion binding]; other site 568816001963 Mg2+ binding site [ion binding]; other site 568816001964 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 568816001965 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816001966 Zn2+ binding site [ion binding]; other site 568816001967 Mg2+ binding site [ion binding]; other site 568816001968 putative acetyltransferase; Provisional; Region: PRK03624 568816001969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816001970 Coenzyme A binding pocket [chemical binding]; other site 568816001971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816001972 Walker A/P-loop; other site 568816001973 ATP binding site [chemical binding]; other site 568816001974 Q-loop/lid; other site 568816001975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816001976 ABC transporter signature motif; other site 568816001977 Walker B; other site 568816001978 D-loop; other site 568816001979 H-loop/switch region; other site 568816001980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816001981 AAA domain; Region: AAA_21; pfam13304 568816001982 Walker A/P-loop; other site 568816001983 ATP binding site [chemical binding]; other site 568816001984 Q-loop/lid; other site 568816001985 ABC transporter signature motif; other site 568816001986 Walker B; other site 568816001987 D-loop; other site 568816001988 H-loop/switch region; other site 568816001989 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 568816001990 dimerization interface [polypeptide binding]; other site 568816001991 putative DNA binding site [nucleotide binding]; other site 568816001992 putative Zn2+ binding site [ion binding]; other site 568816001993 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816001994 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 568816001995 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 568816001996 G1 box; other site 568816001997 putative GEF interaction site [polypeptide binding]; other site 568816001998 GTP/Mg2+ binding site [chemical binding]; other site 568816001999 Switch I region; other site 568816002000 G2 box; other site 568816002001 G3 box; other site 568816002002 Switch II region; other site 568816002003 G4 box; other site 568816002004 G5 box; other site 568816002005 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 568816002006 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 568816002007 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 568816002008 Methyltransferase domain; Region: Methyltransf_31; pfam13847 568816002009 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 568816002010 S-adenosylmethionine binding site [chemical binding]; other site 568816002011 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 568816002012 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 568816002013 DNA binding residues [nucleotide binding] 568816002014 Helix-turn-helix domain; Region: HTH_16; pfam12645 568816002015 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 568816002016 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 568816002017 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 568816002018 hypothetical protein; Validated; Region: PRK08116 568816002019 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 568816002020 Walker A motif; other site 568816002021 ATP binding site [chemical binding]; other site 568816002022 Walker B motif; other site 568816002023 arginine finger; other site 568816002024 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 568816002025 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816002026 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 568816002027 catalytic residues [active] 568816002028 Recombinase; Region: Recombinase; pfam07508 568816002029 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816002030 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 568816002031 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 568816002032 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568816002033 putative substrate translocation pore; other site 568816002034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568816002035 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 568816002036 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 568816002037 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816002038 Coenzyme A binding pocket [chemical binding]; other site 568816002039 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816002040 MarR family; Region: MarR; pfam01047 568816002041 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 568816002042 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 568816002043 ATP binding site [chemical binding]; other site 568816002044 active site 568816002045 substrate binding site [chemical binding]; other site 568816002046 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 568816002047 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 568816002048 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 568816002049 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816002050 minor groove reading motif; other site 568816002051 helix-hairpin-helix signature motif; other site 568816002052 substrate binding pocket [chemical binding]; other site 568816002053 active site 568816002054 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 568816002055 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 568816002056 Helix-turn-helix domain; Region: HTH_18; pfam12833 568816002057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816002058 allantoate amidohydrolase; Reviewed; Region: PRK12890 568816002059 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 568816002060 active site 568816002061 metal binding site [ion binding]; metal-binding site 568816002062 dimer interface [polypeptide binding]; other site 568816002063 Cupin domain; Region: Cupin_2; cl17218 568816002064 Helix-turn-helix domain; Region: HTH_18; pfam12833 568816002065 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816002066 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 568816002067 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 568816002068 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816002069 catalytic residue [active] 568816002070 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816002071 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816002072 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816002073 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 568816002074 metal binding site [ion binding]; metal-binding site 568816002075 putative dimer interface [polypeptide binding]; other site 568816002076 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 568816002077 homotrimer interaction site [polypeptide binding]; other site 568816002078 putative active site [active] 568816002079 putative acyltransferase; Provisional; Region: PRK05790 568816002080 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 568816002081 dimer interface [polypeptide binding]; other site 568816002082 active site 568816002083 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568816002084 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 568816002085 FAD binding site [chemical binding]; other site 568816002086 homotetramer interface [polypeptide binding]; other site 568816002087 substrate binding pocket [chemical binding]; other site 568816002088 catalytic base [active] 568816002089 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 568816002090 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568816002091 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568816002092 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 568816002093 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 568816002094 substrate binding site [chemical binding]; other site 568816002095 oxyanion hole (OAH) forming residues; other site 568816002096 trimer interface [polypeptide binding]; other site 568816002097 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 568816002098 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 568816002099 oligomer interface [polypeptide binding]; other site 568816002100 putative active site [active] 568816002101 metal binding site [ion binding]; metal-binding site 568816002102 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 568816002103 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568816002104 NAD(P) binding site [chemical binding]; other site 568816002105 catalytic residues [active] 568816002106 Uncharacterized conserved protein [Function unknown]; Region: COG1739 568816002107 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 568816002108 Bacterial SH3 domain homologues; Region: SH3b; smart00287 568816002109 Bacterial SH3 domain homologues; Region: SH3b; smart00287 568816002110 Protein of unknown function (DUF535); Region: DUF535; cl01128 568816002111 S-layer homology domain; Region: SLH; pfam00395 568816002112 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 568816002113 S-layer homology domain; Region: SLH; pfam00395 568816002114 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 568816002115 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 568816002116 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 568816002117 NlpC/P60 family; Region: NLPC_P60; cl17555 568816002118 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816002119 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 568816002120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 568816002121 YheO-like PAS domain; Region: PAS_6; pfam08348 568816002122 HTH domain; Region: HTH_22; pfam13309 568816002123 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 568816002124 Ferritin-like domain; Region: Ferritin; pfam00210 568816002125 ferroxidase diiron center [ion binding]; other site 568816002126 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 568816002127 FeS/SAM binding site; other site 568816002128 Radical SAM superfamily; Region: Radical_SAM; pfam04055 568816002129 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 568816002130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816002131 Walker A/P-loop; other site 568816002132 ATP binding site [chemical binding]; other site 568816002133 Q-loop/lid; other site 568816002134 ABC transporter signature motif; other site 568816002135 Walker B; other site 568816002136 D-loop; other site 568816002137 H-loop/switch region; other site 568816002138 ABC transporter; Region: ABC_tran_2; pfam12848 568816002139 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568816002140 4Fe-4S binding domain; Region: Fer4; pfam00037 568816002141 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816002142 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 568816002143 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 568816002144 TIGR04002 family protein; Region: TIGR04002 568816002145 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 568816002146 dimer interface [polypeptide binding]; other site 568816002147 pyridoxal binding site [chemical binding]; other site 568816002148 ATP binding site [chemical binding]; other site 568816002149 potential protein location (hypothetical protein Acin_0748 [Acidaminococcus intestini RyC-MR95]) that overlaps RNA (tRNA-L) 568816002150 Rubrerythrin [Energy production and conversion]; Region: COG1592 568816002151 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 568816002152 binuclear metal center [ion binding]; other site 568816002153 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 568816002154 iron binding site [ion binding]; other site 568816002155 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 568816002156 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816002157 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816002158 QueT transporter; Region: QueT; pfam06177 568816002159 NAD synthetase; Provisional; Region: PRK13981 568816002160 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 568816002161 multimer interface [polypeptide binding]; other site 568816002162 active site 568816002163 catalytic triad [active] 568816002164 protein interface 1 [polypeptide binding]; other site 568816002165 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 568816002166 Ligand Binding Site [chemical binding]; other site 568816002167 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 568816002168 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 568816002169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816002170 catalytic residue [active] 568816002171 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 568816002172 4Fe-4S binding domain; Region: Fer4; pfam00037 568816002173 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816002174 hypothetical protein; Validated; Region: PRK00110 568816002175 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 568816002176 active site 568816002177 putative DNA-binding cleft [nucleotide binding]; other site 568816002178 dimer interface [polypeptide binding]; other site 568816002179 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 568816002180 RuvA N terminal domain; Region: RuvA_N; pfam01330 568816002181 Y-family of DNA polymerases; Region: PolY; cl12025 568816002182 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 568816002183 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 568816002184 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 568816002185 Walker A motif; other site 568816002186 ATP binding site [chemical binding]; other site 568816002187 Walker B motif; other site 568816002188 arginine finger; other site 568816002189 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 568816002190 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 568816002191 Stage II sporulation protein; Region: SpoIID; pfam08486 568816002192 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 568816002193 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 568816002194 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 568816002195 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 568816002196 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 568816002197 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 568816002198 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 568816002199 protein-export membrane protein SecD; Region: secD; TIGR01129 568816002200 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 568816002201 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 568816002202 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 568816002203 Protein export membrane protein; Region: SecD_SecF; pfam02355 568816002204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002205 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816002206 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002207 recombination factor protein RarA; Reviewed; Region: PRK13342 568816002208 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 568816002209 Walker A motif; other site 568816002210 ATP binding site [chemical binding]; other site 568816002211 Walker B motif; other site 568816002212 arginine finger; other site 568816002213 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 568816002214 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 568816002215 Uncharacterized conserved protein [Function unknown]; Region: COG0062 568816002216 putative carbohydrate kinase; Provisional; Region: PRK10565 568816002217 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 568816002218 putative substrate binding site [chemical binding]; other site 568816002219 putative ATP binding site [chemical binding]; other site 568816002220 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 568816002221 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 568816002222 active site 568816002223 metal binding site [ion binding]; metal-binding site 568816002224 Sporulation and spore germination; Region: Germane; pfam10646 568816002225 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 568816002226 Na binding site [ion binding]; other site 568816002227 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 568816002228 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 568816002229 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 568816002230 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 568816002231 active site 568816002232 HIGH motif; other site 568816002233 KMSK motif region; other site 568816002234 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 568816002235 tRNA binding surface [nucleotide binding]; other site 568816002236 anticodon binding site; other site 568816002237 CTP synthetase; Validated; Region: pyrG; PRK05380 568816002238 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 568816002239 Catalytic site [active] 568816002240 active site 568816002241 UTP binding site [chemical binding]; other site 568816002242 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 568816002243 active site 568816002244 putative oxyanion hole; other site 568816002245 catalytic triad [active] 568816002246 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 568816002247 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 568816002248 putative active site [active] 568816002249 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 568816002250 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 568816002251 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 568816002252 ATP binding site [chemical binding]; other site 568816002253 putative Mg++ binding site [ion binding]; other site 568816002254 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 568816002255 nucleotide binding region [chemical binding]; other site 568816002256 ATP-binding site [chemical binding]; other site 568816002257 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 568816002258 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 568816002259 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 568816002260 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 568816002261 homodimer interface [polypeptide binding]; other site 568816002262 metal binding site [ion binding]; metal-binding site 568816002263 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 568816002264 homodimer interface [polypeptide binding]; other site 568816002265 active site 568816002266 putative chemical substrate binding site [chemical binding]; other site 568816002267 metal binding site [ion binding]; metal-binding site 568816002268 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 568816002269 IHF - DNA interface [nucleotide binding]; other site 568816002270 IHF dimer interface [polypeptide binding]; other site 568816002271 Septum formation initiator; Region: DivIC; pfam04977 568816002272 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 568816002273 hypothetical protein; Provisional; Region: PRK08582 568816002274 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 568816002275 RNA binding site [nucleotide binding]; other site 568816002276 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 568816002277 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 568816002278 Ligand Binding Site [chemical binding]; other site 568816002279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816002280 active site 568816002281 FtsH Extracellular; Region: FtsH_ext; pfam06480 568816002282 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 568816002283 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 568816002284 Walker A motif; other site 568816002285 ATP binding site [chemical binding]; other site 568816002286 Walker B motif; other site 568816002287 arginine finger; other site 568816002288 Peptidase family M41; Region: Peptidase_M41; pfam01434 568816002289 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 568816002290 putative DNA binding site [nucleotide binding]; other site 568816002291 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 568816002292 putative Zn2+ binding site [ion binding]; other site 568816002293 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 568816002294 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 568816002295 pantothenate kinase; Reviewed; Region: PRK13318 568816002296 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 568816002297 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 568816002298 FMN binding site [chemical binding]; other site 568816002299 active site 568816002300 catalytic residues [active] 568816002301 substrate binding site [chemical binding]; other site 568816002302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002303 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816002304 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002305 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 568816002306 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 568816002307 metal-binding site [ion binding] 568816002308 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 568816002309 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816002310 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 568816002311 active site 568816002312 motif I; other site 568816002313 motif II; other site 568816002314 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 568816002315 metal-binding site [ion binding] 568816002316 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 568816002317 metal-binding site [ion binding] 568816002318 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 568816002319 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 568816002320 N-terminal plug; other site 568816002321 ligand-binding site [chemical binding]; other site 568816002322 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 568816002323 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 568816002324 intersubunit interface [polypeptide binding]; other site 568816002325 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 568816002326 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 568816002327 ABC-ATPase subunit interface; other site 568816002328 dimer interface [polypeptide binding]; other site 568816002329 putative PBP binding regions; other site 568816002330 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 568816002331 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 568816002332 Walker A/P-loop; other site 568816002333 ATP binding site [chemical binding]; other site 568816002334 Q-loop/lid; other site 568816002335 ABC transporter signature motif; other site 568816002336 Walker B; other site 568816002337 D-loop; other site 568816002338 H-loop/switch region; other site 568816002339 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 568816002340 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 568816002341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002342 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816002343 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002344 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816002345 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568816002346 Walker A/P-loop; other site 568816002347 ATP binding site [chemical binding]; other site 568816002348 Q-loop/lid; other site 568816002349 ABC transporter signature motif; other site 568816002350 Walker B; other site 568816002351 D-loop; other site 568816002352 H-loop/switch region; other site 568816002353 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 568816002354 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 568816002355 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 568816002356 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 568816002357 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 568816002358 Protein of unknown function, DUF399; Region: DUF399; pfam04187 568816002359 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 568816002360 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 568816002361 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 568816002362 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 568816002363 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 568816002364 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 568816002365 FeS/SAM binding site; other site 568816002366 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 568816002367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568816002368 metal binding site [ion binding]; metal-binding site 568816002369 active site 568816002370 I-site; other site 568816002371 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 568816002372 PAS domain S-box; Region: sensory_box; TIGR00229 568816002373 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 568816002374 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568816002375 metal binding site [ion binding]; metal-binding site 568816002376 active site 568816002377 I-site; other site 568816002378 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 568816002379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002380 NAD(P) binding site [chemical binding]; other site 568816002381 active site 568816002382 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568816002383 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 568816002384 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 568816002385 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 568816002386 NodB motif; other site 568816002387 active site 568816002388 metal binding site [ion binding]; metal-binding site 568816002389 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 568816002390 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 568816002391 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 568816002392 DXD motif; other site 568816002393 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 568816002394 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 568816002395 active site 568816002396 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 568816002397 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 568816002398 NodB motif; other site 568816002399 active site 568816002400 catalytic site [active] 568816002401 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 568816002402 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 568816002403 NodB motif; other site 568816002404 active site 568816002405 catalytic site [active] 568816002406 metal binding site [ion binding]; metal-binding site 568816002407 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 568816002408 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 568816002409 putative active site [active] 568816002410 metal binding site [ion binding]; metal-binding site 568816002411 Predicted transcriptional regulators [Transcription]; Region: COG1733 568816002412 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 568816002413 putative Zn2+ binding site [ion binding]; other site 568816002414 putative DNA binding site [nucleotide binding]; other site 568816002415 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 568816002416 active site 568816002417 substrate binding site [chemical binding]; other site 568816002418 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 568816002419 FMN binding site [chemical binding]; other site 568816002420 putative catalytic residues [active] 568816002421 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 568816002422 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 568816002423 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 568816002424 TrkA-N domain; Region: TrkA_N; pfam02254 568816002425 TrkA-C domain; Region: TrkA_C; pfam02080 568816002426 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 568816002427 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 568816002428 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 568816002429 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 568816002430 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816002431 active site 568816002432 HIGH motif; other site 568816002433 nucleotide binding site [chemical binding]; other site 568816002434 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 568816002435 active site 568816002436 KMSKS motif; other site 568816002437 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 568816002438 tRNA binding surface [nucleotide binding]; other site 568816002439 anticodon binding site; other site 568816002440 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 568816002441 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 568816002442 putative homodimer interface [polypeptide binding]; other site 568816002443 putative homotetramer interface [polypeptide binding]; other site 568816002444 putative allosteric switch controlling residues; other site 568816002445 putative metal binding site [ion binding]; other site 568816002446 putative homodimer-homodimer interface [polypeptide binding]; other site 568816002447 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 568816002448 metal-binding site [ion binding] 568816002449 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 568816002450 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568816002451 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 568816002452 periplasmic chaperone; Provisional; Region: PRK10780 568816002453 OstA-like protein; Region: OstA_2; pfam13100 568816002454 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 568816002455 dimer interface [polypeptide binding]; other site 568816002456 active site 568816002457 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 568816002458 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 568816002459 putative ribose interaction site [chemical binding]; other site 568816002460 putative ADP binding site [chemical binding]; other site 568816002461 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 568816002462 active site 568816002463 HIGH motif; other site 568816002464 nucleotide binding site [chemical binding]; other site 568816002465 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 568816002466 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 568816002467 NADP binding site [chemical binding]; other site 568816002468 homopentamer interface [polypeptide binding]; other site 568816002469 substrate binding site [chemical binding]; other site 568816002470 active site 568816002471 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 568816002472 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 568816002473 active site 568816002474 motif I; other site 568816002475 motif II; other site 568816002476 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 568816002477 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568816002478 putative active site [active] 568816002479 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568816002480 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 568816002481 putative active site [active] 568816002482 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 568816002483 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 568816002484 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 568816002485 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 568816002486 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 568816002487 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 568816002488 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 568816002489 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 568816002490 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 568816002491 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816002492 catalytic residue [active] 568816002493 Protein of unknown function (DUF552); Region: DUF552; cl00775 568816002494 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 568816002495 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 568816002496 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 568816002497 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 568816002498 RNA binding surface [nucleotide binding]; other site 568816002499 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 568816002500 catalytic core [active] 568816002501 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816002502 trimer interface [polypeptide binding]; other site 568816002503 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816002504 trimer interface [polypeptide binding]; other site 568816002505 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 568816002506 trimer interface [polypeptide binding]; other site 568816002507 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816002508 trimer interface [polypeptide binding]; other site 568816002509 S-layer homology domain; Region: SLH; pfam00395 568816002510 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 568816002511 FMN binding site [chemical binding]; other site 568816002512 dimer interface [polypeptide binding]; other site 568816002513 Asp23 family; Region: Asp23; pfam03780 568816002514 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 568816002515 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 568816002516 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 568816002517 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568816002518 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 568816002519 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816002520 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816002521 metal binding site [ion binding]; metal-binding site 568816002522 Amino acid permease; Region: AA_permease_2; pfam13520 568816002523 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 568816002524 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 568816002525 active site 568816002526 metal binding site [ion binding]; metal-binding site 568816002527 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 568816002528 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 568816002529 ligand binding site [chemical binding]; other site 568816002530 NAD binding site [chemical binding]; other site 568816002531 catalytic site [active] 568816002532 translocation protein TolB; Provisional; Region: tolB; PRK04922 568816002533 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 568816002534 dimer interface [polypeptide binding]; other site 568816002535 pyridoxamine kinase; Validated; Region: PRK05756 568816002536 pyridoxal binding site [chemical binding]; other site 568816002537 ATP binding site [chemical binding]; other site 568816002538 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 568816002539 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 568816002540 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 568816002541 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 568816002542 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 568816002543 dimer interface [polypeptide binding]; other site 568816002544 putative anticodon binding site; other site 568816002545 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 568816002546 motif 1; other site 568816002547 active site 568816002548 motif 2; other site 568816002549 motif 3; other site 568816002550 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 568816002551 dimer interface [polypeptide binding]; other site 568816002552 putative tRNA-binding site [nucleotide binding]; other site 568816002553 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 568816002554 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816002555 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 568816002556 Peptidase family C69; Region: Peptidase_C69; pfam03577 568816002557 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 568816002558 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 568816002559 FtsX-like permease family; Region: FtsX; pfam02687 568816002560 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 568816002561 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 568816002562 Walker A/P-loop; other site 568816002563 ATP binding site [chemical binding]; other site 568816002564 Q-loop/lid; other site 568816002565 ABC transporter signature motif; other site 568816002566 Walker B; other site 568816002567 D-loop; other site 568816002568 H-loop/switch region; other site 568816002569 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 568816002570 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 568816002571 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 568816002572 dimer interface [polypeptide binding]; other site 568816002573 active site 568816002574 Predicted peptidase [General function prediction only]; Region: COG4099 568816002575 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 568816002576 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 568816002577 Walker A/P-loop; other site 568816002578 ATP binding site [chemical binding]; other site 568816002579 Q-loop/lid; other site 568816002580 ABC transporter signature motif; other site 568816002581 Walker B; other site 568816002582 D-loop; other site 568816002583 H-loop/switch region; other site 568816002584 NIL domain; Region: NIL; pfam09383 568816002585 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 568816002586 dimer interface [polypeptide binding]; other site 568816002587 conserved gate region; other site 568816002588 ABC-ATPase subunit interface; other site 568816002589 Trp repressor protein; Region: Trp_repressor; cl17266 568816002590 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 568816002591 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 568816002592 dimer interface [polypeptide binding]; other site 568816002593 motif 1; other site 568816002594 active site 568816002595 motif 2; other site 568816002596 motif 3; other site 568816002597 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 568816002598 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 568816002599 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 568816002600 histidinol dehydrogenase; Region: hisD; TIGR00069 568816002601 NAD binding site [chemical binding]; other site 568816002602 dimerization interface [polypeptide binding]; other site 568816002603 product binding site; other site 568816002604 substrate binding site [chemical binding]; other site 568816002605 zinc binding site [ion binding]; other site 568816002606 catalytic residues [active] 568816002607 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 568816002608 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 568816002609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816002610 homodimer interface [polypeptide binding]; other site 568816002611 catalytic residue [active] 568816002612 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 568816002613 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 568816002614 3-fold/trimer interface [polypeptide binding]; other site 568816002615 putative active site pocket [active] 568816002616 4-fold oligomerization interface [polypeptide binding]; other site 568816002617 metal binding residues [ion binding]; metal-binding site 568816002618 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 568816002619 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 568816002620 putative active site [active] 568816002621 oxyanion strand; other site 568816002622 catalytic triad [active] 568816002623 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 568816002624 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 568816002625 catalytic residues [active] 568816002626 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 568816002627 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 568816002628 substrate binding site [chemical binding]; other site 568816002629 glutamase interaction surface [polypeptide binding]; other site 568816002630 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 568816002631 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 568816002632 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 568816002633 metal binding site [ion binding]; metal-binding site 568816002634 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 568816002635 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 568816002636 active site 568816002637 substrate binding site [chemical binding]; other site 568816002638 metal binding site [ion binding]; metal-binding site 568816002639 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568816002640 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568816002641 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 568816002642 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 568816002643 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 568816002644 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 568816002645 active site 568816002646 dimer interface [polypeptide binding]; other site 568816002647 motif 1; other site 568816002648 motif 2; other site 568816002649 motif 3; other site 568816002650 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 568816002651 anticodon binding site; other site 568816002652 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 568816002653 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 568816002654 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 568816002655 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 568816002656 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 568816002657 L13 binding site [polypeptide binding]; other site 568816002658 pyruvate carboxylase; Reviewed; Region: PRK12999 568816002659 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568816002660 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 568816002661 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 568816002662 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816002663 active site 568816002664 catalytic residues [active] 568816002665 metal binding site [ion binding]; metal-binding site 568816002666 homodimer binding site [polypeptide binding]; other site 568816002667 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 568816002668 carboxyltransferase (CT) interaction site; other site 568816002669 biotinylation site [posttranslational modification]; other site 568816002670 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 568816002671 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 568816002672 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 568816002673 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 568816002674 active site 568816002675 HIGH motif; other site 568816002676 dimer interface [polypeptide binding]; other site 568816002677 KMSKS motif; other site 568816002678 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 568816002679 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 568816002680 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 568816002681 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 568816002682 active site 568816002683 8-oxo-dGMP binding site [chemical binding]; other site 568816002684 nudix motif; other site 568816002685 metal binding site [ion binding]; metal-binding site 568816002686 Transglycosylase; Region: Transgly; pfam00912 568816002687 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 568816002688 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 568816002689 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 568816002690 Peptidase family U32; Region: Peptidase_U32; pfam01136 568816002691 Collagenase; Region: DUF3656; pfam12392 568816002692 Peptidase family U32; Region: Peptidase_U32; pfam01136 568816002693 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 568816002694 MutS domain III; Region: MutS_III; pfam05192 568816002695 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 568816002696 Walker A/P-loop; other site 568816002697 ATP binding site [chemical binding]; other site 568816002698 Q-loop/lid; other site 568816002699 ABC transporter signature motif; other site 568816002700 Walker B; other site 568816002701 D-loop; other site 568816002702 H-loop/switch region; other site 568816002703 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 568816002704 Smr domain; Region: Smr; pfam01713 568816002705 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 568816002706 GTP-binding protein LepA; Provisional; Region: PRK05433 568816002707 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 568816002708 G1 box; other site 568816002709 putative GEF interaction site [polypeptide binding]; other site 568816002710 GTP/Mg2+ binding site [chemical binding]; other site 568816002711 Switch I region; other site 568816002712 G2 box; other site 568816002713 G3 box; other site 568816002714 Switch II region; other site 568816002715 G4 box; other site 568816002716 G5 box; other site 568816002717 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 568816002718 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 568816002719 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 568816002720 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568816002721 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816002722 DNA-binding site [nucleotide binding]; DNA binding site 568816002723 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568816002724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816002725 DNA-binding site [nucleotide binding]; DNA binding site 568816002726 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 568816002727 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 568816002728 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 568816002729 transmembrane helices; other site 568816002730 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 568816002731 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 568816002732 Cell adhesion-like domain, left-handed beta-roll; Region: LbR_vir_like; cd12819 568816002733 putative trimer interface [polypeptide binding]; other site 568816002734 Cell adhesion-like domain, left-handed beta-roll; Region: LbR_vir_like; cd12819 568816002735 putative trimer interface [polypeptide binding]; other site 568816002736 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 568816002737 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 568816002738 FeS/SAM binding site; other site 568816002739 HemN C-terminal domain; Region: HemN_C; pfam06969 568816002740 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 568816002741 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 568816002742 GrpE; Region: GrpE; pfam01025 568816002743 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 568816002744 dimer interface [polypeptide binding]; other site 568816002745 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 568816002746 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 568816002747 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 568816002748 nucleotide binding site [chemical binding]; other site 568816002749 NEF interaction site [polypeptide binding]; other site 568816002750 SBD interface [polypeptide binding]; other site 568816002751 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 568816002752 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 568816002753 HSP70 interaction site [polypeptide binding]; other site 568816002754 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 568816002755 substrate binding site [polypeptide binding]; other site 568816002756 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 568816002757 Zn binding sites [ion binding]; other site 568816002758 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 568816002759 dimer interface [polypeptide binding]; other site 568816002760 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 568816002761 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 568816002762 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816002763 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816002764 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 568816002765 Y-family of DNA polymerases; Region: PolY; cl12025 568816002766 active site 568816002767 DNA binding site [nucleotide binding] 568816002768 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 568816002769 LytTr DNA-binding domain; Region: LytTR; smart00850 568816002770 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 568816002771 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568816002772 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 568816002773 FeS/SAM binding site; other site 568816002774 TRAM domain; Region: TRAM; cl01282 568816002775 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 568816002776 MutS domain I; Region: MutS_I; pfam01624 568816002777 MutS domain II; Region: MutS_II; pfam05188 568816002778 MutS domain III; Region: MutS_III; pfam05192 568816002779 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 568816002780 Walker A/P-loop; other site 568816002781 ATP binding site [chemical binding]; other site 568816002782 Q-loop/lid; other site 568816002783 ABC transporter signature motif; other site 568816002784 Walker B; other site 568816002785 D-loop; other site 568816002786 H-loop/switch region; other site 568816002787 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 568816002788 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 568816002789 ATP binding site [chemical binding]; other site 568816002790 Mg2+ binding site [ion binding]; other site 568816002791 G-X-G motif; other site 568816002792 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 568816002793 ATP binding site [chemical binding]; other site 568816002794 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 568816002795 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 568816002796 S-adenosylmethionine binding site [chemical binding]; other site 568816002797 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 568816002798 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 568816002799 bacterial Hfq-like; Region: Hfq; cd01716 568816002800 Sm1 motif; other site 568816002801 RNA binding site [nucleotide binding]; other site 568816002802 hexamer interface [polypeptide binding]; other site 568816002803 Sm2 motif; other site 568816002804 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 568816002805 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 568816002806 active site 568816002807 Int/Topo IB signature motif; other site 568816002808 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 568816002809 NodB motif; other site 568816002810 putative active site [active] 568816002811 putative catalytic site [active] 568816002812 Zn binding site [ion binding]; other site 568816002813 Peptidase family M48; Region: Peptidase_M48; cl12018 568816002814 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 568816002815 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 568816002816 oxaloacetate decarboxylase; Provisional; Region: PRK12331 568816002817 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816002818 active site 568816002819 metal binding site [ion binding]; metal-binding site 568816002820 homodimer binding site [polypeptide binding]; other site 568816002821 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 568816002822 dimerization domain swap beta strand [polypeptide binding]; other site 568816002823 regulatory protein interface [polypeptide binding]; other site 568816002824 active site 568816002825 regulatory phosphorylation site [posttranslational modification]; other site 568816002826 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 568816002827 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 568816002828 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 568816002829 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 568816002830 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 568816002831 Family of unknown function (DUF633); Region: DUF633; pfam04816 568816002832 Uncharacterized conserved protein [Function unknown]; Region: COG0327 568816002833 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 568816002834 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 568816002835 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816002836 Zn2+ binding site [ion binding]; other site 568816002837 Mg2+ binding site [ion binding]; other site 568816002838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002839 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816002840 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002841 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002842 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816002843 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002844 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 568816002845 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 568816002846 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 568816002847 putative active site [active] 568816002848 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 568816002849 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 568816002850 substrate binding site; other site 568816002851 dimer interface; other site 568816002852 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 568816002853 homotrimer interaction site [polypeptide binding]; other site 568816002854 zinc binding site [ion binding]; other site 568816002855 CDP-binding sites; other site 568816002856 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 568816002857 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568816002858 active site 568816002859 HIGH motif; other site 568816002860 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568816002861 active site 568816002862 KMSKS motif; other site 568816002863 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 568816002864 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 568816002865 active site 568816002866 HIGH motif; other site 568816002867 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 568816002868 KMSKS motif; other site 568816002869 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 568816002870 tRNA binding surface [nucleotide binding]; other site 568816002871 anticodon binding site; other site 568816002872 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 568816002873 active site 568816002874 metal binding site [ion binding]; metal-binding site 568816002875 dimerization interface [polypeptide binding]; other site 568816002876 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 568816002877 Uncharacterized conserved protein [Function unknown]; Region: COG1284 568816002878 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816002879 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816002880 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 568816002881 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 568816002882 DNA repair protein RadA; Provisional; Region: PRK11823 568816002883 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 568816002884 Walker A motif/ATP binding site; other site 568816002885 ATP binding site [chemical binding]; other site 568816002886 Walker B motif; other site 568816002887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002888 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816002889 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002890 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568816002891 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 568816002892 catalytic residues [active] 568816002893 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 568816002894 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 568816002895 Ligand binding site; other site 568816002896 Putative Catalytic site; other site 568816002897 DXD motif; other site 568816002898 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 568816002899 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 568816002900 NlpC/P60 family; Region: NLPC_P60; pfam00877 568816002901 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 568816002902 Radical SAM superfamily; Region: Radical_SAM; pfam04055 568816002903 FeS/SAM binding site; other site 568816002904 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 568816002905 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568816002906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816002907 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002909 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816002910 non-specific DNA binding site [nucleotide binding]; other site 568816002911 salt bridge; other site 568816002912 sequence-specific DNA binding site [nucleotide binding]; other site 568816002913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816002914 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816002915 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 568816002916 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 568816002917 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 568816002918 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 568816002919 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 568816002920 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09644 568816002921 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 568816002922 tetramer interface [polypeptide binding]; other site 568816002923 putative DNA binding site [nucleotide binding]; other site 568816002924 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 568816002925 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 568816002926 putative metal binding site [ion binding]; other site 568816002927 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 568816002928 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 568816002929 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 568816002930 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 568816002931 dimer interface [polypeptide binding]; other site 568816002932 motif 1; other site 568816002933 active site 568816002934 motif 2; other site 568816002935 motif 3; other site 568816002936 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 568816002937 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 568816002938 putative tRNA-binding site [nucleotide binding]; other site 568816002939 B3/4 domain; Region: B3_4; pfam03483 568816002940 tRNA synthetase B5 domain; Region: B5; pfam03484 568816002941 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 568816002942 dimer interface [polypeptide binding]; other site 568816002943 motif 1; other site 568816002944 motif 3; other site 568816002945 motif 2; other site 568816002946 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 568816002947 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 568816002948 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 568816002949 active site 568816002950 tetramer interface; other site 568816002951 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 568816002952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568816002953 UDP-galactopyranose mutase; Region: GLF; pfam03275 568816002954 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 568816002955 LicD family; Region: LicD; pfam04991 568816002956 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 568816002957 putative transposase OrfB; Reviewed; Region: PHA02517 568816002958 HTH-like domain; Region: HTH_21; pfam13276 568816002959 Integrase core domain; Region: rve; pfam00665 568816002960 Integrase core domain; Region: rve_2; pfam13333 568816002961 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 568816002962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816002963 catalytic residue [active] 568816002964 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568816002965 active site 568816002966 nucleotide binding site [chemical binding]; other site 568816002967 HIGH motif; other site 568816002968 KMSKS motif; other site 568816002969 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 568816002970 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 568816002971 LicD family; Region: LicD; cl01378 568816002972 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 568816002973 substrate binding site; other site 568816002974 dimer interface; other site 568816002975 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568816002976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816002977 NAD(P) binding site [chemical binding]; other site 568816002978 active site 568816002979 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 568816002980 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 568816002981 Probable Catalytic site; other site 568816002982 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 568816002983 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 568816002984 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 568816002985 substrate binding site; other site 568816002986 tetramer interface; other site 568816002987 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 568816002988 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 568816002989 NAD binding site [chemical binding]; other site 568816002990 substrate binding site [chemical binding]; other site 568816002991 homodimer interface [polypeptide binding]; other site 568816002992 active site 568816002993 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 568816002994 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 568816002995 NADP binding site [chemical binding]; other site 568816002996 active site 568816002997 putative substrate binding site [chemical binding]; other site 568816002998 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 568816002999 active site 568816003000 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 568816003001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003002 active site 568816003003 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003004 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816003005 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 568816003006 active site 568816003007 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 568816003008 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 568816003009 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 568816003010 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 568816003011 active site 568816003012 metal binding site [ion binding]; metal-binding site 568816003013 Predicted permeases [General function prediction only]; Region: COG0679 568816003014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816003015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568816003016 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 568816003017 putative active site [active] 568816003018 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 568816003019 putative active site [active] 568816003020 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 568816003021 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568816003022 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 568816003023 dihydroorotase; Validated; Region: pyrC; PRK09357 568816003024 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 568816003025 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 568816003026 active site 568816003027 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 568816003028 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 568816003029 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 568816003030 catalytic site [active] 568816003031 subunit interface [polypeptide binding]; other site 568816003032 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 568816003033 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568816003034 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 568816003035 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 568816003036 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568816003037 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568816003038 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 568816003039 IMP binding site; other site 568816003040 dimer interface [polypeptide binding]; other site 568816003041 interdomain contacts; other site 568816003042 partial ornithine binding site; other site 568816003043 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 568816003044 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 568816003045 FAD binding pocket [chemical binding]; other site 568816003046 FAD binding motif [chemical binding]; other site 568816003047 phosphate binding motif [ion binding]; other site 568816003048 beta-alpha-beta structure motif; other site 568816003049 NAD binding pocket [chemical binding]; other site 568816003050 Iron coordination center [ion binding]; other site 568816003051 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 568816003052 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 568816003053 heterodimer interface [polypeptide binding]; other site 568816003054 active site 568816003055 FMN binding site [chemical binding]; other site 568816003056 homodimer interface [polypeptide binding]; other site 568816003057 substrate binding site [chemical binding]; other site 568816003058 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 568816003059 active site 568816003060 dimer interface [polypeptide binding]; other site 568816003061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816003062 active site 568816003063 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 568816003064 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 568816003065 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568816003066 catalytic residue [active] 568816003067 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 568816003068 thymidylate kinase; Validated; Region: tmk; PRK00698 568816003069 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 568816003070 TMP-binding site; other site 568816003071 ATP-binding site [chemical binding]; other site 568816003072 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 568816003073 DNA polymerase III subunit delta'; Validated; Region: PRK08485 568816003074 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 568816003075 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 568816003076 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 568816003077 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 568816003078 S-adenosylmethionine binding site [chemical binding]; other site 568816003079 Predicted methyltransferases [General function prediction only]; Region: COG0313 568816003080 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 568816003081 putative homodimer interface [polypeptide binding]; other site 568816003082 putative SAM binding site [chemical binding]; other site 568816003083 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 568816003084 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 568816003085 active site 568816003086 HIGH motif; other site 568816003087 KMSKS motif; other site 568816003088 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 568816003089 tRNA binding surface [nucleotide binding]; other site 568816003090 anticodon binding site; other site 568816003091 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 568816003092 dimer interface [polypeptide binding]; other site 568816003093 putative tRNA-binding site [nucleotide binding]; other site 568816003094 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 568816003095 active site 568816003096 Domain of unknown function (DUF348); Region: DUF348; pfam03990 568816003097 G5 domain; Region: G5; pfam07501 568816003098 3D domain; Region: 3D; cl01439 568816003099 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 568816003100 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 568816003101 putative active site [active] 568816003102 putative metal binding site [ion binding]; other site 568816003103 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 568816003104 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 568816003105 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 568816003106 S-adenosylmethionine binding site [chemical binding]; other site 568816003107 Cysteine-rich small domain; Region: zf-like; cl00946 568816003108 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 568816003109 oligomerisation interface [polypeptide binding]; other site 568816003110 mobile loop; other site 568816003111 roof hairpin; other site 568816003112 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 568816003113 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 568816003114 ring oligomerisation interface [polypeptide binding]; other site 568816003115 ATP/Mg binding site [chemical binding]; other site 568816003116 stacking interactions; other site 568816003117 hinge regions; other site 568816003118 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 568816003119 dimer interface [polypeptide binding]; other site 568816003120 catalytic triad [active] 568816003121 peroxidatic and resolving cysteines [active] 568816003122 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 568816003123 putative substrate translocation pore; other site 568816003124 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568816003125 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816003126 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816003127 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816003128 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816003129 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 568816003130 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 568816003131 active site 568816003132 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 568816003133 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 568816003134 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 568816003135 dimer interface [polypeptide binding]; other site 568816003136 conserved gate region; other site 568816003137 putative PBP binding loops; other site 568816003138 ABC-ATPase subunit interface; other site 568816003139 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 568816003140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816003141 Walker A/P-loop; other site 568816003142 ATP binding site [chemical binding]; other site 568816003143 Q-loop/lid; other site 568816003144 ABC transporter signature motif; other site 568816003145 Walker B; other site 568816003146 D-loop; other site 568816003147 H-loop/switch region; other site 568816003148 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 568816003149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816003150 LysR substrate binding domain; Region: LysR_substrate; pfam03466 568816003151 dimerization interface [polypeptide binding]; other site 568816003152 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 568816003153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568816003154 active site 568816003155 catalytic tetrad [active] 568816003156 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 568816003157 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 568816003158 putative active site [active] 568816003159 metal binding site [ion binding]; metal-binding site 568816003160 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 568816003161 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 568816003162 dimerization interface [polypeptide binding]; other site 568816003163 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 568816003164 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 568816003165 dimer interface [polypeptide binding]; other site 568816003166 conserved gate region; other site 568816003167 ABC-ATPase subunit interface; other site 568816003168 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 568816003169 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 568816003170 dimer interface [polypeptide binding]; other site 568816003171 conserved gate region; other site 568816003172 putative PBP binding loops; other site 568816003173 ABC-ATPase subunit interface; other site 568816003174 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 568816003175 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 568816003176 Walker A/P-loop; other site 568816003177 ATP binding site [chemical binding]; other site 568816003178 Q-loop/lid; other site 568816003179 ABC transporter signature motif; other site 568816003180 Walker B; other site 568816003181 D-loop; other site 568816003182 H-loop/switch region; other site 568816003183 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 568816003184 PhoU domain; Region: PhoU; pfam01895 568816003185 PhoU domain; Region: PhoU; pfam01895 568816003186 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 568816003187 AzlC protein; Region: AzlC; cl00570 568816003188 serine/threonine transporter SstT; Provisional; Region: PRK13628 568816003189 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816003190 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 568816003191 putative active site [active] 568816003192 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 568816003193 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 568816003194 active site 568816003195 HIGH motif; other site 568816003196 dimer interface [polypeptide binding]; other site 568816003197 KMSKS motif; other site 568816003198 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816003199 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816003200 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816003201 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003202 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 568816003203 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816003204 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003205 AIR carboxylase; Region: AIRC; pfam00731 568816003206 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 568816003207 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 568816003208 active site 568816003209 tetramer interface [polypeptide binding]; other site 568816003210 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816003211 active site 568816003212 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 568816003213 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 568816003214 dimerization interface [polypeptide binding]; other site 568816003215 putative ATP binding site [chemical binding]; other site 568816003216 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 568816003217 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 568816003218 active site 568816003219 cosubstrate binding site; other site 568816003220 substrate binding site [chemical binding]; other site 568816003221 catalytic site [active] 568816003222 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 568816003223 purine monophosphate binding site [chemical binding]; other site 568816003224 dimer interface [polypeptide binding]; other site 568816003225 putative catalytic residues [active] 568816003226 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 568816003227 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 568816003228 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 568816003229 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 568816003230 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 568816003231 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 568816003232 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 568816003233 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 568816003234 active site 568816003235 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 568816003236 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 568816003237 synthetase active site [active] 568816003238 NTP binding site [chemical binding]; other site 568816003239 metal binding site [ion binding]; metal-binding site 568816003240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816003241 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 568816003242 active site 568816003243 phosphorylation site [posttranslational modification] 568816003244 intermolecular recognition site; other site 568816003245 dimerization interface [polypeptide binding]; other site 568816003246 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 568816003247 DNA binding site [nucleotide binding] 568816003248 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 568816003249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816003250 dimer interface [polypeptide binding]; other site 568816003251 phosphorylation site [posttranslational modification] 568816003252 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 568816003253 ATP binding site [chemical binding]; other site 568816003254 Mg2+ binding site [ion binding]; other site 568816003255 G-X-G motif; other site 568816003256 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 568816003257 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 568816003258 non-specific DNA binding site [nucleotide binding]; other site 568816003259 salt bridge; other site 568816003260 sequence-specific DNA binding site [nucleotide binding]; other site 568816003261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816003262 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003263 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816003265 TIGR04076 family protein; Region: TIGR04076 568816003266 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 568816003267 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568816003268 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 568816003269 active site 568816003270 catalytic residues [active] 568816003271 metal binding site [ion binding]; metal-binding site 568816003272 homodimer binding site [polypeptide binding]; other site 568816003273 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568816003274 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568816003275 DNA binding site [nucleotide binding] 568816003276 domain linker motif; other site 568816003277 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 568816003278 ligand binding site [chemical binding]; other site 568816003279 dimerization interface [polypeptide binding]; other site 568816003280 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 568816003281 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568816003282 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568816003283 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816003284 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 568816003285 dimer interface [polypeptide binding]; other site 568816003286 PYR/PP interface [polypeptide binding]; other site 568816003287 TPP binding site [chemical binding]; other site 568816003288 substrate binding site [chemical binding]; other site 568816003289 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 568816003290 Domain of unknown function; Region: EKR; cl11037 568816003291 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 568816003292 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 568816003293 TPP-binding site [chemical binding]; other site 568816003294 dimer interface [polypeptide binding]; other site 568816003295 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568816003296 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816003297 substrate binding site [chemical binding]; other site 568816003298 ligand binding site [chemical binding]; other site 568816003299 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 568816003300 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 568816003301 substrate binding site [chemical binding]; other site 568816003302 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568816003303 3-isopropylmalate dehydratase large subunit [Amino acid transport and metabolism]; Region: LeuC; COG0065 568816003304 substrate binding site [chemical binding]; other site 568816003305 ligand binding site [chemical binding]; other site 568816003306 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 568816003307 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 568816003308 butyrate kinase; Provisional; Region: PRK03011 568816003309 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816003310 Uncharacterized conserved protein [Function unknown]; Region: COG1284 568816003311 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 568816003312 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 568816003313 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 568816003314 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 568816003315 Asp23 family; Region: Asp23; pfam03780 568816003316 Asp23 family; Region: Asp23; pfam03780 568816003317 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 568816003318 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; cd00447 568816003319 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 568816003320 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 568816003321 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 568816003322 generic binding surface I; other site 568816003323 generic binding surface II; other site 568816003324 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 568816003325 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 568816003326 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 568816003327 substrate binding pocket [chemical binding]; other site 568816003328 chain length determination region; other site 568816003329 substrate-Mg2+ binding site; other site 568816003330 catalytic residues [active] 568816003331 aspartate-rich region 1; other site 568816003332 active site lid residues [active] 568816003333 aspartate-rich region 2; other site 568816003334 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 568816003335 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 568816003336 TPP-binding site; other site 568816003337 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 568816003338 PYR/PP interface [polypeptide binding]; other site 568816003339 dimer interface [polypeptide binding]; other site 568816003340 TPP binding site [chemical binding]; other site 568816003341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816003342 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 568816003343 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 568816003344 RNA binding surface [nucleotide binding]; other site 568816003345 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 568816003346 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 568816003347 ATP-NAD kinase; Region: NAD_kinase; pfam01513 568816003348 arginine repressor; Provisional; Region: PRK04280 568816003349 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 568816003350 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 568816003351 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 568816003352 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 568816003353 Walker A/P-loop; other site 568816003354 ATP binding site [chemical binding]; other site 568816003355 Q-loop/lid; other site 568816003356 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 568816003357 ABC transporter signature motif; other site 568816003358 Walker B; other site 568816003359 D-loop; other site 568816003360 H-loop/switch region; other site 568816003361 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 568816003362 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 568816003363 dimer interface [polypeptide binding]; other site 568816003364 ADP-ribose binding site [chemical binding]; other site 568816003365 active site 568816003366 nudix motif; other site 568816003367 metal binding site [ion binding]; metal-binding site 568816003368 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 568816003369 Uncharacterized conserved protein [Function unknown]; Region: COG2461 568816003370 Family of unknown function (DUF438); Region: DUF438; pfam04282 568816003371 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 568816003372 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 568816003373 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 568816003374 membrane-bound complex binding site; other site 568816003375 hinge residues; other site 568816003376 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568816003377 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568816003378 Walker A/P-loop; other site 568816003379 ATP binding site [chemical binding]; other site 568816003380 Q-loop/lid; other site 568816003381 ABC transporter signature motif; other site 568816003382 Walker B; other site 568816003383 D-loop; other site 568816003384 H-loop/switch region; other site 568816003385 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568816003386 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 568816003387 ABC-ATPase subunit interface; other site 568816003388 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 568816003389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 568816003390 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 568816003391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 568816003392 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 568816003393 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816003394 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 568816003395 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 568816003396 intersubunit interface [polypeptide binding]; other site 568816003397 active site 568816003398 zinc binding site [ion binding]; other site 568816003399 Na+ binding site [ion binding]; other site 568816003400 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 568816003401 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 568816003402 active site 568816003403 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 568816003404 trimer interface [polypeptide binding]; other site 568816003405 active site 568816003406 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 568816003407 dihydrodipicolinate reductase; Provisional; Region: PRK00048 568816003408 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 568816003409 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 568816003410 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 568816003411 aspartate kinase I; Reviewed; Region: PRK08210 568816003412 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 568816003413 nucleotide binding site [chemical binding]; other site 568816003414 substrate binding site [chemical binding]; other site 568816003415 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816003416 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 568816003417 dihydrodipicolinate synthase; Region: dapA; TIGR00674 568816003418 dimer interface [polypeptide binding]; other site 568816003419 active site 568816003420 catalytic residue [active] 568816003421 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 568816003422 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 568816003423 active site 568816003424 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 568816003425 Asp23 family; Region: Asp23; pfam03780 568816003426 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 568816003427 RNA/DNA hybrid binding site [nucleotide binding]; other site 568816003428 active site 568816003429 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 568816003430 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568816003431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816003432 NAD(P) binding site [chemical binding]; other site 568816003433 active site 568816003434 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568816003435 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 568816003436 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816003437 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 568816003438 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 568816003439 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 568816003440 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 568816003441 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 568816003442 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 568816003443 non-specific DNA binding site [nucleotide binding]; other site 568816003444 salt bridge; other site 568816003445 sequence-specific DNA binding site [nucleotide binding]; other site 568816003446 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 568816003447 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 568816003448 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568816003449 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 568816003450 FeS/SAM binding site; other site 568816003451 competence damage-inducible protein A; Provisional; Region: PRK00549 568816003452 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 568816003453 putative MPT binding site; other site 568816003454 Competence-damaged protein; Region: CinA; pfam02464 568816003455 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 568816003456 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 568816003457 ATP binding site [chemical binding]; other site 568816003458 Mg++ binding site [ion binding]; other site 568816003459 motif III; other site 568816003460 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 568816003461 nucleotide binding region [chemical binding]; other site 568816003462 ATP-binding site [chemical binding]; other site 568816003463 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 568816003464 RNA binding site [nucleotide binding]; other site 568816003465 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 568816003466 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 568816003467 HflX GTPase family; Region: HflX; cd01878 568816003468 G1 box; other site 568816003469 GTP/Mg2+ binding site [chemical binding]; other site 568816003470 Switch I region; other site 568816003471 G2 box; other site 568816003472 G3 box; other site 568816003473 Switch II region; other site 568816003474 G4 box; other site 568816003475 G5 box; other site 568816003476 Aluminium resistance protein; Region: Alum_res; pfam06838 568816003477 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 568816003478 LexA repressor; Validated; Region: PRK00215 568816003479 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 568816003480 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 568816003481 Catalytic site [active] 568816003482 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 568816003483 putative substrate binding pocket [chemical binding]; other site 568816003484 active site 568816003485 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 568816003486 pyrophosphatase PpaX; Provisional; Region: PRK13288 568816003487 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 568816003488 motif II; other site 568816003489 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816003490 hypothetical protein; Provisional; Region: PRK07338 568816003491 metal binding site [ion binding]; metal-binding site 568816003492 dimer interface [polypeptide binding]; other site 568816003493 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 568816003494 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 568816003495 DXD motif; other site 568816003496 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 568816003497 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 568816003498 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 568816003499 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 568816003500 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 568816003501 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 568816003502 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 568816003503 G1 box; other site 568816003504 putative GEF interaction site [polypeptide binding]; other site 568816003505 GTP/Mg2+ binding site [chemical binding]; other site 568816003506 Switch I region; other site 568816003507 G2 box; other site 568816003508 G3 box; other site 568816003509 Switch II region; other site 568816003510 G4 box; other site 568816003511 G5 box; other site 568816003512 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 568816003513 homoserine kinase; Provisional; Region: PRK01212 568816003514 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 568816003515 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 568816003516 homoserine dehydrogenase; Provisional; Region: PRK06349 568816003517 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 568816003518 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 568816003519 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 568816003520 hypothetical protein; Provisional; Region: PRK04435 568816003521 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 568816003522 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 568816003523 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 568816003524 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 568816003525 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 568816003526 GTP-binding protein Der; Reviewed; Region: PRK00093 568816003527 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 568816003528 G1 box; other site 568816003529 GTP/Mg2+ binding site [chemical binding]; other site 568816003530 Switch I region; other site 568816003531 G2 box; other site 568816003532 Switch II region; other site 568816003533 G3 box; other site 568816003534 G4 box; other site 568816003535 G5 box; other site 568816003536 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 568816003537 G1 box; other site 568816003538 GTP/Mg2+ binding site [chemical binding]; other site 568816003539 Switch I region; other site 568816003540 G2 box; other site 568816003541 G3 box; other site 568816003542 Switch II region; other site 568816003543 G4 box; other site 568816003544 G5 box; other site 568816003545 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 568816003546 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 568816003547 homotetramer interface [polypeptide binding]; other site 568816003548 FMN binding site [chemical binding]; other site 568816003549 homodimer contacts [polypeptide binding]; other site 568816003550 putative active site [active] 568816003551 putative substrate binding site [chemical binding]; other site 568816003552 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 568816003553 LytB protein; Region: LYTB; cl00507 568816003554 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 568816003555 RNA binding site [nucleotide binding]; other site 568816003556 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 568816003557 RNA binding site [nucleotide binding]; other site 568816003558 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 568816003559 RNA binding site [nucleotide binding]; other site 568816003560 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 568816003561 RNA binding site [nucleotide binding]; other site 568816003562 domain interface; other site 568816003563 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 568816003564 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 568816003565 putative acyl-acceptor binding pocket; other site 568816003566 cytidylate kinase; Provisional; Region: cmk; PRK00023 568816003567 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 568816003568 CMP-binding site; other site 568816003569 The sites determining sugar specificity; other site 568816003570 HI0933-like protein; Region: HI0933_like; pfam03486 568816003571 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 568816003572 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 568816003573 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 568816003574 RNA binding surface [nucleotide binding]; other site 568816003575 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 568816003576 active site 568816003577 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 568816003578 ScpA/B protein; Region: ScpA_ScpB; cl00598 568816003579 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 568816003580 Peptidase family M50; Region: Peptidase_M50; pfam02163 568816003581 active site 568816003582 putative substrate binding region [chemical binding]; other site 568816003583 transcriptional repressor CodY; Validated; Region: PRK04158 568816003584 CodY GAF-like domain; Region: CodY; pfam06018 568816003585 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 568816003586 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 568816003587 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 568816003588 active site 568816003589 Int/Topo IB signature motif; other site 568816003590 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 568816003591 Glucose inhibited division protein A; Region: GIDA; pfam01134 568816003592 DNA topoisomerase I; Validated; Region: PRK05582 568816003593 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 568816003594 active site 568816003595 interdomain interaction site; other site 568816003596 putative metal-binding site [ion binding]; other site 568816003597 nucleotide binding site [chemical binding]; other site 568816003598 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 568816003599 domain I; other site 568816003600 DNA binding groove [nucleotide binding] 568816003601 phosphate binding site [ion binding]; other site 568816003602 domain II; other site 568816003603 domain III; other site 568816003604 nucleotide binding site [chemical binding]; other site 568816003605 catalytic site [active] 568816003606 domain IV; other site 568816003607 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 568816003608 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 568816003609 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 568816003610 DNA protecting protein DprA; Region: dprA; TIGR00732 568816003611 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 568816003612 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 568816003613 G1 box; other site 568816003614 GTP/Mg2+ binding site [chemical binding]; other site 568816003615 Switch I region; other site 568816003616 G2 box; other site 568816003617 Switch II region; other site 568816003618 G3 box; other site 568816003619 G4 box; other site 568816003620 G5 box; other site 568816003621 DNA-binding protein, stimulates sugar fermentation [General function prediction only]; Region: SfsA; COG1489 568816003622 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 568816003623 GIY-YIG motif/motif A; other site 568816003624 putative active site [active] 568816003625 putative metal binding site [ion binding]; other site 568816003626 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 568816003627 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 568816003628 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 568816003629 Peptidase M16C associated; Region: M16C_assoc; pfam08367 568816003630 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 568816003631 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 568816003632 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 568816003633 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 568816003634 dimerization interface [polypeptide binding]; other site 568816003635 ATP binding site [chemical binding]; other site 568816003636 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 568816003637 dimerization interface [polypeptide binding]; other site 568816003638 ATP binding site [chemical binding]; other site 568816003639 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 568816003640 putative active site [active] 568816003641 catalytic triad [active] 568816003642 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 568816003643 Sterol carrier protein domain; Region: SCP2_2; pfam13530 568816003644 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 568816003645 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 568816003646 catalytic core [active] 568816003647 elongation factor P; Validated; Region: PRK00529 568816003648 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 568816003649 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 568816003650 RNA binding site [nucleotide binding]; other site 568816003651 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 568816003652 RNA binding site [nucleotide binding]; other site 568816003653 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 568816003654 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 568816003655 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 568816003656 active site 568816003657 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 568816003658 Peptidase family U32; Region: Peptidase_U32; pfam01136 568816003659 YceG-like family; Region: YceG; pfam02618 568816003660 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 568816003661 dimerization interface [polypeptide binding]; other site 568816003662 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 568816003663 hypothetical protein; Provisional; Region: PRK05473 568816003664 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 568816003665 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 568816003666 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 568816003667 motif 1; other site 568816003668 active site 568816003669 motif 2; other site 568816003670 motif 3; other site 568816003671 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 568816003672 DHHA1 domain; Region: DHHA1; pfam02272 568816003673 aspartate aminotransferase; Provisional; Region: PRK06836 568816003674 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 568816003675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816003676 homodimer interface [polypeptide binding]; other site 568816003677 catalytic residue [active] 568816003678 putative hydratase; Provisional; Region: PRK11413 568816003679 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 568816003680 substrate binding site [chemical binding]; other site 568816003681 ligand binding site [chemical binding]; other site 568816003682 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 568816003683 substrate binding site [chemical binding]; other site 568816003684 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 568816003685 tartrate dehydrogenase; Region: TTC; TIGR02089 568816003686 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 568816003687 transmembrane helices; other site 568816003688 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568816003689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 568816003690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816003692 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 568816003693 dimerization interface [polypeptide binding]; other site 568816003694 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 568816003695 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 568816003696 putative homodimer interface [polypeptide binding]; other site 568816003697 putative ligand binding site [chemical binding]; other site 568816003698 putative NAD binding site [chemical binding]; other site 568816003699 catalytic site [active] 568816003700 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 568816003701 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 568816003702 non-heme iron binding site [ion binding]; other site 568816003703 dimer interface [polypeptide binding]; other site 568816003704 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 568816003705 non-heme iron binding site [ion binding]; other site 568816003706 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 568816003707 SmpB-tmRNA interface; other site 568816003708 ribonuclease R; Region: RNase_R; TIGR02063 568816003709 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 568816003710 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 568816003711 RNB domain; Region: RNB; pfam00773 568816003712 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 568816003713 RNA binding site [nucleotide binding]; other site 568816003714 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 568816003715 active site 2 [active] 568816003716 active site 1 [active] 568816003717 Esterase/lipase [General function prediction only]; Region: COG1647 568816003718 PGAP1-like protein; Region: PGAP1; pfam07819 568816003719 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 568816003720 amidase catalytic site [active] 568816003721 Zn binding residues [ion binding]; other site 568816003722 substrate binding site [chemical binding]; other site 568816003723 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 568816003724 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 568816003725 FeS/SAM binding site; other site 568816003726 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 568816003727 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 568816003728 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 568816003729 FeS/SAM binding site; other site 568816003730 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 568816003731 Phage tail protein; Region: Sipho_tail; cl17486 568816003732 Mu-like prophage protein [General function prediction only]; Region: COG3941 568816003733 tape measure domain; Region: tape_meas_nterm; TIGR02675 568816003734 Phage-related protein [Function unknown]; Region: COG5412 568816003735 membrane protein P6; Region: PHA01399 568816003736 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 568816003737 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 568816003738 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 568816003739 Phage terminase large subunit; Region: Terminase_3; cl12054 568816003740 Terminase-like family; Region: Terminase_6; pfam03237 568816003741 Protein of unknown function (DUF722); Region: DUF722; pfam05263 568816003742 Helix-turn-helix domain; Region: HTH_36; pfam13730 568816003743 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 568816003744 RecT family; Region: RecT; cl04285 568816003745 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 568816003746 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568816003747 Helix-turn-helix domain; Region: HTH_17; pfam12728 568816003748 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568816003749 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 568816003750 non-specific DNA binding site [nucleotide binding]; other site 568816003751 salt bridge; other site 568816003752 sequence-specific DNA binding site [nucleotide binding]; other site 568816003753 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 568816003754 non-specific DNA binding site [nucleotide binding]; other site 568816003755 salt bridge; other site 568816003756 sequence-specific DNA binding site [nucleotide binding]; other site 568816003757 Abi-like protein; Region: Abi_2; cl01988 568816003758 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 568816003759 active site 568816003760 DNA binding site [nucleotide binding] 568816003761 Int/Topo IB signature motif; other site 568816003762 pantoate--beta-alanine ligase; Region: panC; TIGR00018 568816003763 Pantoate-beta-alanine ligase; Region: PanC; cd00560 568816003764 active site 568816003765 ATP-binding site [chemical binding]; other site 568816003766 pantoate-binding site; other site 568816003767 HXXH motif; other site 568816003768 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 568816003769 tetramerization interface [polypeptide binding]; other site 568816003770 active site 568816003771 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 568816003772 Sodium Bile acid symporter family; Region: SBF; pfam01758 568816003773 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 568816003774 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568816003775 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568816003776 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816003777 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 568816003778 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 568816003779 NAD(P) binding site [chemical binding]; other site 568816003780 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 568816003781 homotrimer interaction site [polypeptide binding]; other site 568816003782 putative active site [active] 568816003783 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 568816003784 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 568816003785 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816003786 DNA-binding site [nucleotide binding]; DNA binding site 568816003787 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 568816003788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816003789 homodimer interface [polypeptide binding]; other site 568816003790 catalytic residue [active] 568816003791 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 568816003792 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568816003793 potential frameshift: common BLAST hit: gi|348027409|ref|YP_004767214.1| RNA-directed DNA polymerase (Reverse transcriptase) 568816003794 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 568816003795 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 568816003796 putative active site [active] 568816003797 putative NTP binding site [chemical binding]; other site 568816003798 putative nucleic acid binding site [nucleotide binding]; other site 568816003799 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 568816003800 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 568816003801 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816003802 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 568816003803 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 568816003804 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568816003805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816003807 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 568816003808 dimerization interface [polypeptide binding]; other site 568816003809 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 568816003810 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568816003811 putative substrate translocation pore; other site 568816003812 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 568816003813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816003814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816003815 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 568816003816 dimerization interface [polypeptide binding]; other site 568816003817 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 568816003818 Part of AAA domain; Region: AAA_19; pfam13245 568816003819 Family description; Region: UvrD_C_2; pfam13538 568816003820 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 568816003821 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 568816003822 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 568816003823 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 568816003824 FAD binding domain; Region: FAD_binding_4; pfam01565 568816003825 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 568816003826 Protein of unknown function (DUF964); Region: DUF964; pfam06133 568816003827 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 568816003828 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 568816003829 dimerization interface [polypeptide binding]; other site 568816003830 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 568816003831 dimer interface [polypeptide binding]; other site 568816003832 phosphorylation site [posttranslational modification] 568816003833 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 568816003834 ATP binding site [chemical binding]; other site 568816003835 Mg2+ binding site [ion binding]; other site 568816003836 G-X-G motif; other site 568816003837 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816003838 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 568816003839 active site 568816003840 phosphorylation site [posttranslational modification] 568816003841 intermolecular recognition site; other site 568816003842 dimerization interface [polypeptide binding]; other site 568816003843 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 568816003844 DNA binding site [nucleotide binding] 568816003845 Predicted integral membrane protein [Function unknown]; Region: COG5660 568816003846 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 568816003847 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 568816003848 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 568816003849 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 568816003850 DDE superfamily endonuclease; Region: DDE_5; pfam13546 568816003851 Transposase IS200 like; Region: Y1_Tnp; cl00848 568816003852 DDE superfamily endonuclease; Region: DDE_5; cl17874 568816003853 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 568816003854 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 568816003855 putative transposase OrfB; Reviewed; Region: PHA02517 568816003856 Integrase core domain; Region: rve; pfam00665 568816003857 Integrase core domain; Region: rve_3; pfam13683 568816003858 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 568816003859 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816003860 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 568816003861 catalytic residues [active] 568816003862 catalytic nucleophile [active] 568816003863 Recombinase; Region: Recombinase; pfam07508 568816003864 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816003865 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816003866 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 568816003867 catalytic residues [active] 568816003868 catalytic nucleophile [active] 568816003869 Recombinase; Region: Recombinase; pfam07508 568816003870 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816003871 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816003872 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 568816003873 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 568816003874 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816003875 minor groove reading motif; other site 568816003876 helix-hairpin-helix signature motif; other site 568816003877 active site 568816003878 SacI restriction endonuclease; Region: RE_SacI; pfam09566 568816003879 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 568816003880 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 568816003881 cofactor binding site; other site 568816003882 DNA binding site [nucleotide binding] 568816003883 substrate interaction site [chemical binding]; other site 568816003884 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 568816003885 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 568816003886 active site 568816003887 metal binding site [ion binding]; metal-binding site 568816003888 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 568816003889 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 568816003890 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 568816003891 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 568816003892 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 568816003893 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 568816003894 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 568816003895 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 568816003896 Phage XkdN-like protein; Region: XkdN; pfam08890 568816003897 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 568816003898 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 568816003899 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 568816003900 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 568816003901 oligomerization interface [polypeptide binding]; other site 568816003902 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 568816003903 Phage capsid family; Region: Phage_capsid; pfam05065 568816003904 Clp protease; Region: CLP_protease; pfam00574 568816003905 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 568816003906 oligomer interface [polypeptide binding]; other site 568816003907 active site residues [active] 568816003908 Phage-related protein [Function unknown]; Region: COG4695 568816003909 Phage portal protein; Region: Phage_portal; pfam04860 568816003910 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; cl17442 568816003911 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 568816003912 Phage terminase, small subunit; Region: Terminase_4; pfam05119 568816003913 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 568816003914 putative active site pocket [active] 568816003915 dimerization interface [polypeptide binding]; other site 568816003916 putative catalytic residue [active] 568816003917 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 568816003918 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 568816003919 cofactor binding site; other site 568816003920 DNA binding site [nucleotide binding] 568816003921 substrate interaction site [chemical binding]; other site 568816003922 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 568816003923 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 568816003924 ParB-like nuclease domain; Region: ParBc; pfam02195 568816003925 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 568816003926 DNA methylase; Region: N6_N4_Mtase; pfam01555 568816003927 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 568816003928 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816003929 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 568816003930 ATP binding site [chemical binding]; other site 568816003931 putative Mg++ binding site [ion binding]; other site 568816003932 VRR-NUC domain; Region: VRR_NUC; pfam08774 568816003933 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 568816003934 D5 N terminal like; Region: D5_N; pfam08706 568816003935 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 568816003936 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 568816003937 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 568816003938 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 568816003939 active site 568816003940 DNA binding site [nucleotide binding] 568816003941 catalytic site [active] 568816003942 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 568816003943 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 568816003944 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 568816003945 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 568816003946 Baseplate J-like protein; Region: Baseplate_J; pfam04865 568816003947 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 568816003948 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 568816003949 Phage XkdN-like protein; Region: XkdN; pfam08890 568816003950 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 568816003951 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 568816003952 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 568816003953 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 568816003954 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 568816003955 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 568816003956 Phage terminase large subunit; Region: Terminase_3; cl12054 568816003957 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 568816003958 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 568816003959 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 568816003960 Walker A motif; other site 568816003961 ATP binding site [chemical binding]; other site 568816003962 Walker B motif; other site 568816003963 DEAD-like helicases superfamily; Region: DEXDc; smart00487 568816003964 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 568816003965 ATP binding site [chemical binding]; other site 568816003966 putative Mg++ binding site [ion binding]; other site 568816003967 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 568816003968 nucleotide binding region [chemical binding]; other site 568816003969 ATP-binding site [chemical binding]; other site 568816003970 AAA domain; Region: AAA_24; pfam13479 568816003971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816003972 AAA domain; Region: AAA_23; pfam13476 568816003973 Walker A/P-loop; other site 568816003974 ATP binding site [chemical binding]; other site 568816003975 Q-loop/lid; other site 568816003976 ABC transporter signature motif; other site 568816003977 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568816003978 Helix-turn-helix domain; Region: HTH_17; pfam12728 568816003979 BRO family, N-terminal domain; Region: Bro-N; pfam02498 568816003980 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 568816003981 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568816003982 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 568816003983 non-specific DNA binding site [nucleotide binding]; other site 568816003984 salt bridge; other site 568816003985 sequence-specific DNA binding site [nucleotide binding]; other site 568816003986 Virulence protein [General function prediction only]; Region: COG3943 568816003987 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 568816003988 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 568816003989 active site 568816003990 DNA binding site [nucleotide binding] 568816003991 Int/Topo IB signature motif; other site 568816003992 Rubredoxin [Energy production and conversion]; Region: COG1773 568816003993 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 568816003994 iron binding site [ion binding]; other site 568816003995 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 568816003996 Rubrerythrin [Energy production and conversion]; Region: COG1592 568816003997 diiron binding motif [ion binding]; other site 568816003998 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 568816003999 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 568816004000 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 568816004001 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816004002 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 568816004003 motif I; other site 568816004004 motif II; other site 568816004005 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 568816004006 metal-binding site [ion binding] 568816004007 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 568816004008 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 568816004009 G1 box; other site 568816004010 GTP/Mg2+ binding site [chemical binding]; other site 568816004011 Switch I region; other site 568816004012 G2 box; other site 568816004013 G3 box; other site 568816004014 Switch II region; other site 568816004015 G4 box; other site 568816004016 G5 box; other site 568816004017 Nucleoside recognition; Region: Gate; pfam07670 568816004018 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 568816004019 Nucleoside recognition; Region: Gate; pfam07670 568816004020 FeoA domain; Region: FeoA; pfam04023 568816004021 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 568816004022 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 568816004023 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 568816004024 catalytic triad [active] 568816004025 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 568816004026 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 568816004027 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816004028 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816004029 Mechanosensitive ion channel; Region: MS_channel; pfam00924 568816004030 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 568816004031 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 568816004032 EamA-like transporter family; Region: EamA; pfam00892 568816004033 EamA-like transporter family; Region: EamA; pfam00892 568816004034 Predicted membrane protein [Function unknown]; Region: COG3601 568816004035 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 568816004036 putative transposase OrfB; Reviewed; Region: PHA02517 568816004037 HTH-like domain; Region: HTH_21; pfam13276 568816004038 Integrase core domain; Region: rve; pfam00665 568816004039 Integrase core domain; Region: rve_2; pfam13333 568816004040 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 568816004041 active site 568816004042 phosphorylation site [posttranslational modification] 568816004043 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 568816004044 active site 568816004045 P-loop; other site 568816004046 phosphorylation site [posttranslational modification] 568816004047 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 568816004048 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 568816004049 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 568816004050 putative substrate binding site [chemical binding]; other site 568816004051 putative ATP binding site [chemical binding]; other site 568816004052 Escherichia coli YdjC-like family of proteins; Region: YdjC; cd10808 568816004053 putative active site [active] 568816004054 YdjC motif; other site 568816004055 Mg binding site [ion binding]; other site 568816004056 putative homodimer interface [polypeptide binding]; other site 568816004057 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 568816004058 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 568816004059 AlkA N-terminal domain; Region: AlkA_N; pfam06029 568816004060 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 568816004061 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568816004062 minor groove reading motif; other site 568816004063 helix-hairpin-helix signature motif; other site 568816004064 substrate binding pocket [chemical binding]; other site 568816004065 active site 568816004066 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 568816004067 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 568816004068 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 568816004069 DNA binding site [nucleotide binding] 568816004070 active site 568816004071 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568816004072 EamA-like transporter family; Region: EamA; pfam00892 568816004073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 568816004074 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; cl17257 568816004075 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 568816004076 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 568816004077 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 568816004078 putative NADH binding site [chemical binding]; other site 568816004079 putative active site [active] 568816004080 nudix motif; other site 568816004081 putative metal binding site [ion binding]; other site 568816004082 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 568816004083 trimer interface [polypeptide binding]; other site 568816004084 active site 568816004085 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 568816004086 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 568816004087 putative substrate translocation pore; other site 568816004088 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 568816004089 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568816004090 catalytic site [active] 568816004091 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 568816004092 RibD C-terminal domain; Region: RibD_C; cl17279 568816004093 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 568816004094 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 568816004095 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568816004096 active site 568816004097 catalytic tetrad [active] 568816004098 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568816004099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816004101 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 568816004102 dimerization interface [polypeptide binding]; other site 568816004103 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 568816004104 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 568816004105 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568816004106 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 568816004107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816004108 Walker A/P-loop; other site 568816004109 ATP binding site [chemical binding]; other site 568816004110 Q-loop/lid; other site 568816004111 ABC transporter signature motif; other site 568816004112 Walker B; other site 568816004113 D-loop; other site 568816004114 H-loop/switch region; other site 568816004115 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 568816004116 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 568816004117 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568816004118 active site 568816004119 catalytic tetrad [active] 568816004120 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 568816004121 catalytic tetrad [active] 568816004122 GMP synthase; Reviewed; Region: guaA; PRK00074 568816004123 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 568816004124 AMP/PPi binding site [chemical binding]; other site 568816004125 candidate oxyanion hole; other site 568816004126 catalytic triad [active] 568816004127 potential glutamine specificity residues [chemical binding]; other site 568816004128 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 568816004129 ATP Binding subdomain [chemical binding]; other site 568816004130 Ligand Binding sites [chemical binding]; other site 568816004131 Dimerization subdomain; other site 568816004132 uracil transporter; Provisional; Region: PRK10720 568816004133 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816004134 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 568816004135 putative metal binding site [ion binding]; other site 568816004136 dimer interface [polypeptide binding]; other site 568816004137 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 568816004138 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 568816004139 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 568816004140 DXD motif; other site 568816004141 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 568816004142 catalytic center binding site [active] 568816004143 ATP binding site [chemical binding]; other site 568816004144 dihydropteroate synthase; Region: DHPS; TIGR01496 568816004145 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 568816004146 substrate binding pocket [chemical binding]; other site 568816004147 dimer interface [polypeptide binding]; other site 568816004148 inhibitor binding site; inhibition site 568816004149 putative GTP cyclohydrolase; Provisional; Region: PRK13674 568816004150 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 568816004151 active site 568816004152 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 568816004153 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 568816004154 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 568816004155 Na binding site [ion binding]; other site 568816004156 metal-dependent hydrolase; Provisional; Region: PRK00685 568816004157 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 568816004158 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568816004159 Tubby C 2; Region: Tub_2; cl02043 568816004160 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816004161 Zn2+ binding site [ion binding]; other site 568816004162 Mg2+ binding site [ion binding]; other site 568816004163 Membrane transport protein; Region: Mem_trans; cl09117 568816004164 malate dehydrogenase; Provisional; Region: PRK13529 568816004165 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568816004166 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 568816004167 NAD(P) binding site [chemical binding]; other site 568816004168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816004170 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 568816004171 dimerization interface [polypeptide binding]; other site 568816004172 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 568816004173 dimerization interface [polypeptide binding]; other site 568816004174 putative DNA binding site [nucleotide binding]; other site 568816004175 putative Zn2+ binding site [ion binding]; other site 568816004176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568816004177 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 568816004178 dimer interface [polypeptide binding]; other site 568816004179 active site 568816004180 metal binding site [ion binding]; metal-binding site 568816004181 glutathione binding site [chemical binding]; other site 568816004182 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568816004183 EamA-like transporter family; Region: EamA; pfam00892 568816004184 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 568816004185 FAD binding domain; Region: FAD_binding_4; pfam01565 568816004186 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 568816004187 Protein of unknown function (DUF964); Region: DUF964; pfam06133 568816004188 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 568816004189 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 568816004190 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 568816004191 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 568816004192 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 568816004193 glutaminase active site [active] 568816004194 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 568816004195 dimer interface [polypeptide binding]; other site 568816004196 active site 568816004197 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 568816004198 dimer interface [polypeptide binding]; other site 568816004199 active site 568816004200 enolase; Provisional; Region: eno; PRK00077 568816004201 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 568816004202 dimer interface [polypeptide binding]; other site 568816004203 metal binding site [ion binding]; metal-binding site 568816004204 substrate binding pocket [chemical binding]; other site 568816004205 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 568816004206 phosphoglyceromutase; Provisional; Region: PRK05434 568816004207 bifunctional phosphoglycerate kinase/triosephosphate isomerase; Provisional; Region: PRK13962 568816004208 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 568816004209 substrate binding site [chemical binding]; other site 568816004210 hinge regions; other site 568816004211 ADP binding site [chemical binding]; other site 568816004212 catalytic site [active] 568816004213 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 568816004214 substrate binding site [chemical binding]; other site 568816004215 dimer interface [polypeptide binding]; other site 568816004216 catalytic triad [active] 568816004217 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 568816004218 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 568816004219 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 568816004220 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 568816004221 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 568816004222 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816004223 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 568816004224 Pirin-related protein [General function prediction only]; Region: COG1741 568816004225 Pirin; Region: Pirin; pfam02678 568816004226 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 568816004227 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816004228 MarR family; Region: MarR_2; cl17246 568816004229 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 568816004230 Na2 binding site [ion binding]; other site 568816004231 putative substrate binding site 1 [chemical binding]; other site 568816004232 Na binding site 1 [ion binding]; other site 568816004233 putative substrate binding site 2 [chemical binding]; other site 568816004234 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 568816004235 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 568816004236 active site 568816004237 motif I; other site 568816004238 motif II; other site 568816004239 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 568816004240 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816004241 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 568816004242 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568816004243 EamA-like transporter family; Region: EamA; pfam00892 568816004244 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816004245 EamA-like transporter family; Region: EamA; pfam00892 568816004246 DEAD-like helicases superfamily; Region: DEXDc; smart00487 568816004247 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 568816004248 ATP binding site [chemical binding]; other site 568816004249 putative Mg++ binding site [ion binding]; other site 568816004250 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 568816004251 nucleotide binding region [chemical binding]; other site 568816004252 ATP-binding site [chemical binding]; other site 568816004253 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 568816004254 AAA ATPase domain; Region: AAA_16; pfam13191 568816004255 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 568816004256 FMN binding site [chemical binding]; other site 568816004257 dimer interface [polypeptide binding]; other site 568816004258 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816004259 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 568816004260 FeS/SAM binding site; other site 568816004261 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 568816004262 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 568816004263 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 568816004264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004265 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816004266 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004267 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 568816004268 Flavoprotein; Region: Flavoprotein; pfam02441 568816004269 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 568816004270 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 568816004271 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 568816004272 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 568816004273 catalytic site [active] 568816004274 G-X2-G-X-G-K; other site 568816004275 hypothetical protein; Provisional; Region: PRK04323 568816004276 hypothetical protein; Provisional; Region: PRK11820 568816004277 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 568816004278 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 568816004279 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 568816004280 Domain of unknown function (DUF814); Region: DUF814; pfam05670 568816004281 putative transposase OrfB; Reviewed; Region: PHA02517 568816004282 HTH-like domain; Region: HTH_21; pfam13276 568816004283 Integrase core domain; Region: rve; pfam00665 568816004284 Integrase core domain; Region: rve_2; pfam13333 568816004285 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 568816004286 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 568816004287 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 568816004288 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 568816004289 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 568816004290 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 568816004291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004292 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816004293 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004294 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 568816004295 ATP cone domain; Region: ATP-cone; pfam03477 568816004296 cell division protein FtsZ; Validated; Region: PRK09330 568816004297 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 568816004298 nucleotide binding site [chemical binding]; other site 568816004299 SulA interaction site; other site 568816004300 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 568816004301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 568816004302 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 568816004303 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 568816004304 Cell division protein FtsQ; Region: FtsQ; pfam03799 568816004305 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 568816004306 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 568816004307 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568816004308 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 568816004309 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568816004310 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004311 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816004312 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 568816004313 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 568816004314 active site 568816004315 homodimer interface [polypeptide binding]; other site 568816004316 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 568816004317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816004319 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 568816004320 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 568816004321 Mg++ binding site [ion binding]; other site 568816004322 putative catalytic motif [active] 568816004323 putative substrate binding site [chemical binding]; other site 568816004324 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 568816004325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568816004326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004327 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 568816004328 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568816004329 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568816004330 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568816004331 Cell division protein FtsL; Region: FtsL; cl11433 568816004332 MraW methylase family; Region: Methyltransf_5; pfam01795 568816004333 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 568816004334 cell division protein MraZ; Reviewed; Region: PRK00326 568816004335 MraZ protein; Region: MraZ; pfam02381 568816004336 MraZ protein; Region: MraZ; pfam02381 568816004337 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 568816004338 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 568816004339 galactarate dehydratase; Region: galactar-dH20; TIGR03248 568816004340 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 568816004341 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 568816004342 biotin synthase; Region: bioB; TIGR00433 568816004343 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 568816004344 FeS/SAM binding site; other site 568816004345 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 568816004346 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816004347 trimer interface [polypeptide binding]; other site 568816004348 Haemagglutinin; Region: HIM; pfam05662 568816004349 YadA-like C-terminal region; Region: YadA; pfam03895 568816004350 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 568816004351 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 568816004352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816004353 homodimer interface [polypeptide binding]; other site 568816004354 catalytic residue [active] 568816004355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 568816004356 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568816004357 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568816004358 Walker A/P-loop; other site 568816004359 ATP binding site [chemical binding]; other site 568816004360 Q-loop/lid; other site 568816004361 ABC transporter signature motif; other site 568816004362 Walker B; other site 568816004363 D-loop; other site 568816004364 H-loop/switch region; other site 568816004365 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 568816004366 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568816004367 dimer interface [polypeptide binding]; other site 568816004368 conserved gate region; other site 568816004369 putative PBP binding loops; other site 568816004370 ABC-ATPase subunit interface; other site 568816004371 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 568816004372 dimer interface [polypeptide binding]; other site 568816004373 conserved gate region; other site 568816004374 putative PBP binding loops; other site 568816004375 ABC-ATPase subunit interface; other site 568816004376 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004377 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 568816004378 substrate binding pocket [chemical binding]; other site 568816004379 membrane-bound complex binding site; other site 568816004380 hinge residues; other site 568816004381 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 568816004382 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816004383 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 568816004384 putative dimer interface [polypeptide binding]; other site 568816004385 N-terminal domain interface [polypeptide binding]; other site 568816004386 putative substrate binding pocket (H-site) [chemical binding]; other site 568816004387 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 568816004388 active site 568816004389 metal binding site [ion binding]; metal-binding site 568816004390 homotetramer interface [polypeptide binding]; other site 568816004391 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 568816004392 hypothetical protein; Provisional; Region: PRK05463 568816004393 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816004394 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816004395 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 568816004396 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568816004397 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 568816004398 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 568816004399 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 568816004400 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 568816004401 dimer interface [polypeptide binding]; other site 568816004402 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 568816004403 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 568816004404 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 568816004405 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 568816004406 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 568816004407 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 568816004408 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 568816004409 TPP-binding site [chemical binding]; other site 568816004410 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 568816004411 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 568816004412 PYR/PP interface [polypeptide binding]; other site 568816004413 TPP binding site [chemical binding]; other site 568816004414 dimer interface [polypeptide binding]; other site 568816004415 substrate binding site [chemical binding]; other site 568816004416 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568816004417 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 568816004418 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568816004419 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 568816004420 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 568816004421 ligand binding site [chemical binding]; other site 568816004422 NAD binding site [chemical binding]; other site 568816004423 dimerization interface [polypeptide binding]; other site 568816004424 catalytic site [active] 568816004425 GntP family permease; Region: GntP_permease; pfam02447 568816004426 fructuronate transporter; Provisional; Region: PRK10034; cl15264 568816004427 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 568816004428 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 568816004429 active site 568816004430 tetramer interface [polypeptide binding]; other site 568816004431 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816004433 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 568816004434 dimerization interface [polypeptide binding]; other site 568816004435 Dehydratase family; Region: ILVD_EDD; cl00340 568816004436 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 568816004437 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 568816004438 conserved cys residue [active] 568816004439 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 568816004440 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 568816004441 active site 568816004442 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 568816004443 putative transposase OrfB; Reviewed; Region: PHA02517 568816004444 HTH-like domain; Region: HTH_21; pfam13276 568816004445 Integrase core domain; Region: rve; pfam00665 568816004446 Integrase core domain; Region: rve_2; pfam13333 568816004447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816004448 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 568816004449 Walker A/P-loop; other site 568816004450 ATP binding site [chemical binding]; other site 568816004451 Q-loop/lid; other site 568816004452 ABC transporter signature motif; other site 568816004453 Walker B; other site 568816004454 D-loop; other site 568816004455 H-loop/switch region; other site 568816004456 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 568816004457 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 568816004458 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816004459 metal binding site [ion binding]; metal-binding site 568816004460 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 568816004461 16S/18S rRNA binding site [nucleotide binding]; other site 568816004462 S13e-L30e interaction site [polypeptide binding]; other site 568816004463 25S rRNA binding site [nucleotide binding]; other site 568816004464 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 568816004465 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 568816004466 active site 568816004467 Riboflavin kinase; Region: Flavokinase; pfam01687 568816004468 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 568816004469 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 568816004470 RNA binding site [nucleotide binding]; other site 568816004471 active site 568816004472 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 568816004473 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 568816004474 DHH family; Region: DHH; pfam01368 568816004475 Ribosome-binding factor A; Region: RBFA; pfam02033 568816004476 translation initiation factor IF-2; Validated; Region: infB; PRK05306 568816004477 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 568816004478 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 568816004479 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 568816004480 G1 box; other site 568816004481 putative GEF interaction site [polypeptide binding]; other site 568816004482 GTP/Mg2+ binding site [chemical binding]; other site 568816004483 Switch I region; other site 568816004484 G2 box; other site 568816004485 G3 box; other site 568816004486 Switch II region; other site 568816004487 G4 box; other site 568816004488 G5 box; other site 568816004489 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 568816004490 Translation-initiation factor 2; Region: IF-2; pfam11987 568816004491 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 568816004492 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 568816004493 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 568816004494 putative RNA binding cleft [nucleotide binding]; other site 568816004495 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 568816004496 NusA N-terminal domain; Region: NusA_N; pfam08529 568816004497 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 568816004498 RNA binding site [nucleotide binding]; other site 568816004499 homodimer interface [polypeptide binding]; other site 568816004500 NusA-like KH domain; Region: KH_5; pfam13184 568816004501 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 568816004502 G-X-X-G motif; other site 568816004503 Sm and related proteins; Region: Sm_like; cl00259 568816004504 ribosome maturation protein RimP; Reviewed; Region: PRK00092 568816004505 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 568816004506 putative oligomer interface [polypeptide binding]; other site 568816004507 putative RNA binding site [nucleotide binding]; other site 568816004508 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 568816004509 Interdomain contacts; other site 568816004510 Cytokine receptor motif; other site 568816004511 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816004512 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 568816004513 active site 568816004514 metal binding site [ion binding]; metal-binding site 568816004515 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 568816004516 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 568816004517 G1 box; other site 568816004518 putative GEF interaction site [polypeptide binding]; other site 568816004519 GTP/Mg2+ binding site [chemical binding]; other site 568816004520 Switch I region; other site 568816004521 G2 box; other site 568816004522 G3 box; other site 568816004523 Switch II region; other site 568816004524 G4 box; other site 568816004525 G5 box; other site 568816004526 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 568816004527 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 568816004528 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 568816004529 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816004530 Beta-Casp domain; Region: Beta-Casp; smart01027 568816004531 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 568816004532 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 568816004533 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816004534 non-specific DNA binding site [nucleotide binding]; other site 568816004535 salt bridge; other site 568816004536 sequence-specific DNA binding site [nucleotide binding]; other site 568816004537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004538 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004539 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 568816004540 PHP domain; Region: PHP; pfam02811 568816004541 active site 568816004542 putative PHP Thumb interface [polypeptide binding]; other site 568816004543 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 568816004544 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 568816004545 MgtC family; Region: MgtC; pfam02308 568816004546 prolyl-tRNA synthetase; Provisional; Region: PRK09194 568816004547 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 568816004548 dimer interface [polypeptide binding]; other site 568816004549 motif 1; other site 568816004550 active site 568816004551 motif 2; other site 568816004552 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 568816004553 putative deacylase active site [active] 568816004554 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 568816004555 active site 568816004556 motif 3; other site 568816004557 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 568816004558 anticodon binding site; other site 568816004559 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 568816004560 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568816004561 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568816004562 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 568816004563 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 568816004564 active site 568816004565 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 568816004566 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 568816004567 putative substrate binding region [chemical binding]; other site 568816004568 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 568816004569 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 568816004570 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 568816004571 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 568816004572 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 568816004573 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 568816004574 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 568816004575 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 568816004576 catalytic residue [active] 568816004577 putative FPP diphosphate binding site; other site 568816004578 putative FPP binding hydrophobic cleft; other site 568816004579 dimer interface [polypeptide binding]; other site 568816004580 putative IPP diphosphate binding site; other site 568816004581 ribosome recycling factor; Reviewed; Region: frr; PRK00083 568816004582 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 568816004583 hinge region; other site 568816004584 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 568816004585 putative nucleotide binding site [chemical binding]; other site 568816004586 uridine monophosphate binding site [chemical binding]; other site 568816004587 homohexameric interface [polypeptide binding]; other site 568816004588 elongation factor Ts; Provisional; Region: tsf; PRK09377 568816004589 UBA/TS-N domain; Region: UBA; pfam00627 568816004590 Elongation factor TS; Region: EF_TS; pfam00889 568816004591 Elongation factor TS; Region: EF_TS; pfam00889 568816004592 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 568816004593 rRNA interaction site [nucleotide binding]; other site 568816004594 S8 interaction site; other site 568816004595 putative laminin-1 binding site; other site 568816004596 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 568816004597 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 568816004598 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 568816004599 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 568816004600 FeS/SAM binding site; other site 568816004601 ribonuclease III; Reviewed; Region: rnc; PRK00102 568816004602 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 568816004603 dimerization interface [polypeptide binding]; other site 568816004604 active site 568816004605 metal binding site [ion binding]; metal-binding site 568816004606 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 568816004607 dsRNA binding site [nucleotide binding]; other site 568816004608 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 568816004609 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 568816004610 dimer interface [polypeptide binding]; other site 568816004611 active site 568816004612 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 568816004613 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 568816004614 FMN binding site [chemical binding]; other site 568816004615 substrate binding site [chemical binding]; other site 568816004616 putative catalytic residue [active] 568816004617 acyl carrier protein; Provisional; Region: acpP; PRK00982 568816004618 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 568816004619 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 568816004620 NAD(P) binding site [chemical binding]; other site 568816004621 homotetramer interface [polypeptide binding]; other site 568816004622 homodimer interface [polypeptide binding]; other site 568816004623 active site 568816004624 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 568816004625 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 568816004626 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 568816004627 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 568816004628 dimer interface [polypeptide binding]; other site 568816004629 active site 568816004630 CoA binding pocket [chemical binding]; other site 568816004631 putative phosphate acyltransferase; Provisional; Region: PRK05331 568816004632 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 568816004633 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 568816004634 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 568816004635 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 568816004636 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 568816004637 propionate/acetate kinase; Provisional; Region: PRK12379 568816004638 hypothetical protein; Provisional; Region: PRK13670 568816004639 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 568816004640 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 568816004641 FeS/SAM binding site; other site 568816004642 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 568816004643 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 568816004644 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 568816004645 (T/H)XGH motif; other site 568816004646 active site 568816004647 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 568816004648 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 568816004649 S-adenosylmethionine binding site [chemical binding]; other site 568816004650 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 568816004651 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 568816004652 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816004653 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816004654 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568816004655 peroxiredoxin; Region: AhpC; TIGR03137 568816004656 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 568816004657 dimer interface [polypeptide binding]; other site 568816004658 decamer (pentamer of dimers) interface [polypeptide binding]; other site 568816004659 catalytic triad [active] 568816004660 peroxidatic and resolving cysteines [active] 568816004661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816004662 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004663 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004665 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 568816004666 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568816004667 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568816004668 Yqey-like protein; Region: YqeY; pfam09424 568816004669 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 568816004670 nucleotide binding site/active site [active] 568816004671 HIT family signature motif; other site 568816004672 catalytic residue [active] 568816004673 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 568816004674 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568816004675 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 568816004676 FeS/SAM binding site; other site 568816004677 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 568816004678 RNA methyltransferase, RsmE family; Region: TIGR00046 568816004679 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 568816004680 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 568816004681 S-adenosylmethionine binding site [chemical binding]; other site 568816004682 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 568816004683 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 568816004684 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 568816004685 TrkA-N domain; Region: TrkA_N; pfam02254 568816004686 TrkA-C domain; Region: TrkA_C; pfam02080 568816004687 TrkA-N domain; Region: TrkA_N; pfam02254 568816004688 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 568816004689 Acyltransferase family; Region: Acyl_transf_3; pfam01757 568816004690 Predicted permeases [General function prediction only]; Region: COG0679 568816004691 pyruvate kinase; Provisional; Region: PRK06354 568816004692 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 568816004693 domain interfaces; other site 568816004694 active site 568816004695 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 568816004696 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 568816004697 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 568816004698 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 568816004699 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 568816004700 Electron transfer flavoprotein domain; Region: ETF; pfam01012 568816004701 Ligand binding site [chemical binding]; other site 568816004702 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 568816004703 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 568816004704 active site 568816004705 PHP Thumb interface [polypeptide binding]; other site 568816004706 metal binding site [ion binding]; metal-binding site 568816004707 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 568816004708 generic binding surface II; other site 568816004709 generic binding surface I; other site 568816004710 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 568816004711 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 568816004712 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 568816004713 Protein of unknown function DUF45; Region: DUF45; pfam01863 568816004714 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 568816004715 Domain of unknown function DUF21; Region: DUF21; pfam01595 568816004716 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 568816004717 Transporter associated domain; Region: CorC_HlyC; pfam03471 568816004718 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568816004719 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 568816004720 motif II; other site 568816004721 hypothetical protein; Provisional; Region: PRK13665 568816004722 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 568816004723 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004724 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004725 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 568816004726 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 568816004727 Cl- selectivity filter; other site 568816004728 Cl- binding residues [ion binding]; other site 568816004729 pore gating glutamate residue; other site 568816004730 dimer interface [polypeptide binding]; other site 568816004731 H+/Cl- coupling transport residue; other site 568816004732 TrkA-C domain; Region: TrkA_C; pfam02080 568816004733 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 568816004734 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 568816004735 active site 568816004736 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816004737 substrate binding site [chemical binding]; other site 568816004738 catalytic residues [active] 568816004739 dimer interface [polypeptide binding]; other site 568816004740 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 568816004741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816004742 Walker A/P-loop; other site 568816004743 ATP binding site [chemical binding]; other site 568816004744 Q-loop/lid; other site 568816004745 ABC transporter signature motif; other site 568816004746 Walker B; other site 568816004747 D-loop; other site 568816004748 H-loop/switch region; other site 568816004749 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 568816004750 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568816004751 TM-ABC transporter signature motif; other site 568816004752 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 568816004753 zinc binding site [ion binding]; other site 568816004754 putative ligand binding site [chemical binding]; other site 568816004755 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 568816004756 Peptidase family M48; Region: Peptidase_M48; pfam01435 568816004757 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 568816004758 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 568816004759 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 568816004760 active site 568816004761 metal binding site [ion binding]; metal-binding site 568816004762 DNA binding site [nucleotide binding] 568816004763 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 568816004764 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 568816004765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816004766 Walker A/P-loop; other site 568816004767 ATP binding site [chemical binding]; other site 568816004768 Q-loop/lid; other site 568816004769 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 568816004770 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 568816004771 ABC transporter signature motif; other site 568816004772 Walker B; other site 568816004773 D-loop; other site 568816004774 H-loop/switch region; other site 568816004775 chaperone protein HchA; Provisional; Region: PRK04155 568816004776 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 568816004777 conserved cys residue [active] 568816004778 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568816004779 MarR family; Region: MarR_2; pfam12802 568816004780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816004781 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 568816004782 dimerization interface [polypeptide binding]; other site 568816004783 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 568816004784 dimer interface [polypeptide binding]; other site 568816004785 phosphorylation site [posttranslational modification] 568816004786 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 568816004787 ATP binding site [chemical binding]; other site 568816004788 Mg2+ binding site [ion binding]; other site 568816004789 G-X-G motif; other site 568816004790 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816004791 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 568816004792 active site 568816004793 phosphorylation site [posttranslational modification] 568816004794 intermolecular recognition site; other site 568816004795 dimerization interface [polypeptide binding]; other site 568816004796 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 568816004797 DNA binding site [nucleotide binding] 568816004798 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 568816004799 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 568816004800 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568816004801 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 568816004802 Soluble P-type ATPase [General function prediction only]; Region: COG4087 568816004803 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 568816004804 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 568816004805 MgtE intracellular N domain; Region: MgtE_N; pfam03448 568816004806 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 568816004807 Divalent cation transporter; Region: MgtE; pfam01769 568816004808 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 568816004809 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 568816004810 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 568816004811 putative RNA binding site [nucleotide binding]; other site 568816004812 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 568816004813 S-adenosylmethionine binding site [chemical binding]; other site 568816004814 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816004815 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816004816 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816004817 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568816004818 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 568816004819 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 568816004820 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 568816004821 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568816004822 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 568816004823 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568816004824 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 568816004825 putative NAD(P) binding site [chemical binding]; other site 568816004826 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 568816004827 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816004828 active site 568816004829 metal binding site [ion binding]; metal-binding site 568816004830 homotetramer interface [polypeptide binding]; other site 568816004831 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 568816004832 active site 568816004833 dimerization interface [polypeptide binding]; other site 568816004834 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 568816004835 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 568816004836 active site 568816004837 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 568816004838 endonuclease IV; Provisional; Region: PRK01060 568816004839 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 568816004840 AP (apurinic/apyrimidinic) site pocket; other site 568816004841 DNA interaction; other site 568816004842 Metal-binding active site; metal-binding site 568816004843 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816004844 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 568816004845 dimer interface [polypeptide binding]; other site 568816004846 phosphorylation site [posttranslational modification] 568816004847 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 568816004848 ATP binding site [chemical binding]; other site 568816004849 Mg2+ binding site [ion binding]; other site 568816004850 G-X-G motif; other site 568816004851 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 568816004852 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 568816004853 active site 568816004854 phosphorylation site [posttranslational modification] 568816004855 intermolecular recognition site; other site 568816004856 dimerization interface [polypeptide binding]; other site 568816004857 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 568816004858 C-terminal peptidase (prc); Region: prc; TIGR00225 568816004859 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 568816004860 protein binding site [polypeptide binding]; other site 568816004861 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 568816004862 Catalytic dyad [active] 568816004863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 568816004864 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 568816004865 Peptidase family M23; Region: Peptidase_M23; pfam01551 568816004866 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 568816004867 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 568816004868 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 568816004869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816004870 Walker A/P-loop; other site 568816004871 ATP binding site [chemical binding]; other site 568816004872 Q-loop/lid; other site 568816004873 ABC transporter signature motif; other site 568816004874 Walker B; other site 568816004875 D-loop; other site 568816004876 H-loop/switch region; other site 568816004877 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 568816004878 peptide chain release factor 2; Validated; Region: prfB; PRK00578 568816004879 This domain is found in peptide chain release factors; Region: PCRF; smart00937 568816004880 RF-1 domain; Region: RF-1; pfam00472 568816004881 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 568816004882 DEAD/DEAH box helicase; Region: DEAD; pfam00270 568816004883 ATP binding site [chemical binding]; other site 568816004884 putative Mg++ binding site [ion binding]; other site 568816004885 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 568816004886 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 568816004887 nucleotide binding region [chemical binding]; other site 568816004888 ATP-binding site [chemical binding]; other site 568816004889 SEC-C motif; Region: SEC-C; pfam02810 568816004890 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 568816004891 30S subunit binding site; other site 568816004892 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568816004893 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568816004894 Walker A/P-loop; other site 568816004895 ATP binding site [chemical binding]; other site 568816004896 Q-loop/lid; other site 568816004897 ABC transporter signature motif; other site 568816004898 Walker B; other site 568816004899 D-loop; other site 568816004900 H-loop/switch region; other site 568816004901 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568816004902 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 568816004903 dimer interface [polypeptide binding]; other site 568816004904 conserved gate region; other site 568816004905 putative PBP binding loops; other site 568816004906 ABC-ATPase subunit interface; other site 568816004907 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004908 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 568816004909 substrate binding pocket [chemical binding]; other site 568816004910 membrane-bound complex binding site; other site 568816004911 hinge residues; other site 568816004912 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004913 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 568816004914 substrate binding pocket [chemical binding]; other site 568816004915 membrane-bound complex binding site; other site 568816004916 hinge residues; other site 568816004917 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004918 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 568816004919 substrate binding pocket [chemical binding]; other site 568816004920 membrane-bound complex binding site; other site 568816004921 hinge residues; other site 568816004922 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816004923 Zn2+ binding site [ion binding]; other site 568816004924 Mg2+ binding site [ion binding]; other site 568816004925 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 568816004926 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 568816004927 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 568816004928 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 568816004929 Double zinc ribbon; Region: DZR; pfam12773 568816004930 Protein of unknown function (DUF805); Region: DUF805; pfam05656 568816004931 YadA-like C-terminal region; Region: YadA; pfam03895 568816004932 Haemagglutinin; Region: HIM; pfam05662 568816004933 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 568816004934 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 568816004935 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 568816004936 TrkA-C domain; Region: TrkA_C; pfam02080 568816004937 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 568816004938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816004940 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 568816004941 dimerization interface [polypeptide binding]; other site 568816004942 Predicted membrane protein [Function unknown]; Region: COG2855 568816004943 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 568816004944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816004945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816004946 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 568816004947 dimerization interface [polypeptide binding]; other site 568816004948 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 568816004949 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568816004950 short chain dehydrogenase; Provisional; Region: PRK06180 568816004951 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 568816004952 NADP binding site [chemical binding]; other site 568816004953 active site 568816004954 steroid binding site; other site 568816004955 short chain dehydrogenase; Provisional; Region: PRK06180 568816004956 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 568816004957 NADP binding site [chemical binding]; other site 568816004958 active site 568816004959 steroid binding site; other site 568816004960 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 568816004961 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 568816004962 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 568816004963 substrate binding pocket [chemical binding]; other site 568816004964 catalytic triad [active] 568816004965 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816004966 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816004967 dimer interface [polypeptide binding]; other site 568816004968 active site 568816004969 metal binding site [ion binding]; metal-binding site 568816004970 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816004971 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 568816004972 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568816004973 catalytic site [active] 568816004974 Predicted permeases [General function prediction only]; Region: COG0679 568816004975 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 568816004976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568816004977 catalytic site [active] 568816004978 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 568816004979 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 568816004980 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568816004981 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 568816004982 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 568816004983 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 568816004984 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 568816004985 DNA binding residues [nucleotide binding] 568816004986 putative dimer interface [polypeptide binding]; other site 568816004987 hypothetical protein; Validated; Region: PRK06201 568816004988 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 568816004989 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 568816004990 HTH domain; Region: HTH_11; pfam08279 568816004991 3H domain; Region: 3H; pfam02829 568816004992 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816004993 putative efflux protein, MATE family; Region: matE; TIGR00797 568816004994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816004995 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816004996 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816004997 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568816004998 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 568816004999 substrate binding pocket [chemical binding]; other site 568816005000 membrane-bound complex binding site; other site 568816005001 hinge residues; other site 568816005002 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 568816005003 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 568816005004 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 568816005005 active site 568816005006 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 568816005007 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 568816005008 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 568816005009 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 568816005010 putative acyl-acceptor binding pocket; other site 568816005011 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 568816005012 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 568816005013 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 568816005014 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 568816005015 trimer interface [polypeptide binding]; other site 568816005016 active site 568816005017 UDP-GlcNAc binding site [chemical binding]; other site 568816005018 lipid binding site [chemical binding]; lipid-binding site 568816005019 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 568816005020 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 568816005021 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568816005022 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 568816005023 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568816005024 Surface antigen; Region: Bac_surface_Ag; pfam01103 568816005025 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568816005026 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568816005027 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568816005028 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568816005029 Family of unknown function (DUF490); Region: DUF490; pfam04357 568816005030 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 568816005031 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 568816005032 mce related protein; Region: MCE; pfam02470 568816005033 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 568816005034 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 568816005035 Walker A/P-loop; other site 568816005036 ATP binding site [chemical binding]; other site 568816005037 Q-loop/lid; other site 568816005038 ABC transporter signature motif; other site 568816005039 Walker B; other site 568816005040 D-loop; other site 568816005041 H-loop/switch region; other site 568816005042 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 568816005043 Permease; Region: Permease; pfam02405 568816005044 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 568816005045 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 568816005046 AMIN domain; Region: AMIN; pfam11741 568816005047 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 568816005048 rod shape-determining protein MreB; Provisional; Region: PRK13930 568816005049 MreB and similar proteins; Region: MreB_like; cd10225 568816005050 nucleotide binding site [chemical binding]; other site 568816005051 Mg binding site [ion binding]; other site 568816005052 putative protofilament interaction site [polypeptide binding]; other site 568816005053 RodZ interaction site [polypeptide binding]; other site 568816005054 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 568816005055 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 568816005056 hinge; other site 568816005057 active site 568816005058 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 568816005059 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 568816005060 gamma subunit interface [polypeptide binding]; other site 568816005061 epsilon subunit interface [polypeptide binding]; other site 568816005062 LBP interface [polypeptide binding]; other site 568816005063 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 568816005064 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568816005065 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 568816005066 alpha subunit interaction interface [polypeptide binding]; other site 568816005067 Walker A motif; other site 568816005068 ATP binding site [chemical binding]; other site 568816005069 Walker B motif; other site 568816005070 inhibitor binding site; inhibition site 568816005071 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816005072 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 568816005073 core domain interface [polypeptide binding]; other site 568816005074 delta subunit interface [polypeptide binding]; other site 568816005075 epsilon subunit interface [polypeptide binding]; other site 568816005076 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 568816005077 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 568816005078 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 568816005079 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568816005080 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 568816005081 beta subunit interaction interface [polypeptide binding]; other site 568816005082 Walker A motif; other site 568816005083 ATP binding site [chemical binding]; other site 568816005084 Walker B motif; other site 568816005085 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568816005086 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 568816005087 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 568816005088 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 568816005089 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 568816005090 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 568816005091 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 568816005092 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 568816005093 active site 568816005094 homodimer interface [polypeptide binding]; other site 568816005095 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 568816005096 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 568816005097 putative catalytic motif [active] 568816005098 substrate binding site [chemical binding]; other site 568816005099 Chromate transporter; Region: Chromate_transp; pfam02417 568816005100 Chromate transporter; Region: Chromate_transp; pfam02417 568816005101 multidrug efflux protein; Reviewed; Region: PRK01766 568816005102 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 568816005103 cation binding site [ion binding]; other site 568816005104 Sulfatase; Region: Sulfatase; cl17466 568816005105 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 568816005106 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 568816005107 GtrA-like protein; Region: GtrA; pfam04138 568816005108 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 568816005109 recombination protein RecR; Reviewed; Region: recR; PRK00076 568816005110 RecR protein; Region: RecR; pfam02132 568816005111 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 568816005112 putative active site [active] 568816005113 putative metal-binding site [ion binding]; other site 568816005114 tetramer interface [polypeptide binding]; other site 568816005115 hypothetical protein; Validated; Region: PRK00153 568816005116 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 568816005117 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 568816005118 Walker A motif; other site 568816005119 ATP binding site [chemical binding]; other site 568816005120 Walker B motif; other site 568816005121 arginine finger; other site 568816005122 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 568816005123 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568816005124 FAD binding domain; Region: FAD_binding_4; pfam01565 568816005125 alanine racemase; Reviewed; Region: alr; PRK00053 568816005126 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 568816005127 active site 568816005128 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568816005129 dimer interface [polypeptide binding]; other site 568816005130 substrate binding site [chemical binding]; other site 568816005131 catalytic residues [active] 568816005132 Homoserine O-succinyltransferase; Region: HTS; pfam04204 568816005133 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 568816005134 proposed active site lysine [active] 568816005135 conserved cys residue [active] 568816005136 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 568816005137 nucleoside/Zn binding site; other site 568816005138 dimer interface [polypeptide binding]; other site 568816005139 catalytic motif [active] 568816005140 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 568816005141 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 568816005142 active site 568816005143 DNA binding site [nucleotide binding] 568816005144 Int/Topo IB signature motif; other site 568816005145 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 568816005146 crystallin beta/gamma motif-containing protein; Region: PHA00657 568816005147 crystallin beta/gamma motif-containing protein; Region: PHA00657 568816005148 hypothetical protein; Region: PHA00661 568816005149 hypothetical protein; Region: PHA00662 568816005150 major capsid protein; Region: PHA00665 568816005151 putative protease; Region: PHA00666 568816005152 hypothetical protein; Region: PHA00670 568816005153 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 568816005154 large terminase protein; Provisional; Region: 17; PHA02533 568816005155 acyl-CoA oxidase; Region: PLN02312 568816005156 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 568816005157 oligomerisation interface [polypeptide binding]; other site 568816005158 roof hairpin; other site 568816005159 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 568816005160 VRR-NUC domain; Region: VRR_NUC; pfam08774 568816005161 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 568816005162 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 568816005163 ATP binding site [chemical binding]; other site 568816005164 putative Mg++ binding site [ion binding]; other site 568816005165 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 568816005166 nucleotide binding region [chemical binding]; other site 568816005167 ATP-binding site [chemical binding]; other site 568816005168 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 568816005169 trimer interface [polypeptide binding]; other site 568816005170 active site 568816005171 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 568816005172 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 568816005173 active site 568816005174 metal binding site [ion binding]; metal-binding site 568816005175 interdomain interaction site; other site 568816005176 Domain of unknown function (DUF927); Region: DUF927; cl12098 568816005177 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 568816005178 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568816005179 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 568816005180 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 568816005181 Int/Topo IB signature motif; other site 568816005182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816005184 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 568816005185 dimerization interface [polypeptide binding]; other site 568816005186 Chromate transporter; Region: Chromate_transp; pfam02417 568816005187 Chromate transporter; Region: Chromate_transp; pfam02417 568816005188 4Fe-4S binding domain; Region: Fer4_6; pfam12837 568816005189 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568816005190 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 568816005191 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 568816005192 ligand binding site [chemical binding]; other site 568816005193 flexible hinge region; other site 568816005194 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 568816005195 putative switch regulator; other site 568816005196 non-specific DNA interactions [nucleotide binding]; other site 568816005197 DNA binding site [nucleotide binding] 568816005198 sequence specific DNA binding site [nucleotide binding]; other site 568816005199 putative cAMP binding site [chemical binding]; other site 568816005200 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 568816005201 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568816005202 putative active site [active] 568816005203 putative metal binding site [ion binding]; other site 568816005204 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 568816005205 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 568816005206 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 568816005207 S-adenosylmethionine binding site [chemical binding]; other site 568816005208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816005209 NAD(P) binding site [chemical binding]; other site 568816005210 active site 568816005211 transcriptional regulator SlyA; Provisional; Region: PRK03573 568816005212 Transposase [DNA replication, recombination, and repair]; Region: COG5421 568816005213 TIGR04076 family protein; Region: TIGR04076 568816005214 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816005215 trimer interface [polypeptide binding]; other site 568816005216 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 568816005217 trimer interface [polypeptide binding]; other site 568816005218 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816005219 trimer interface [polypeptide binding]; other site 568816005220 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816005221 trimer interface [polypeptide binding]; other site 568816005222 S-layer homology domain; Region: SLH; pfam00395 568816005223 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 568816005224 trimer interface [polypeptide binding]; other site 568816005225 Haemagglutinin; Region: HIM; pfam05662 568816005226 YadA-like C-terminal region; Region: YadA; pfam03895 568816005227 S-layer homology domain; Region: SLH; pfam00395 568816005228 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816005229 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 568816005230 catalytic residues [active] 568816005231 catalytic nucleophile [active] 568816005232 Recombinase; Region: Recombinase; pfam07508 568816005233 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005234 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816005235 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 568816005236 catalytic residues [active] 568816005237 catalytic nucleophile [active] 568816005238 Recombinase; Region: Recombinase; pfam07508 568816005239 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005240 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005241 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 568816005242 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 568816005243 active site 568816005244 DNA binding site [nucleotide binding] 568816005245 catalytic site [active] 568816005246 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 568816005247 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 568816005248 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 568816005249 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 568816005250 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 568816005251 non-specific DNA binding site [nucleotide binding]; other site 568816005252 salt bridge; other site 568816005253 sequence-specific DNA binding site [nucleotide binding]; other site 568816005254 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 568816005255 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 568816005256 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 568816005257 active site 568816005258 metal binding site [ion binding]; metal-binding site 568816005259 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 568816005260 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 568816005261 FeS/SAM binding site; other site 568816005262 Hint domain; Region: Hint_2; pfam13403 568816005263 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 568816005264 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 568816005265 Phage tail protein; Region: Sipho_tail; cl17486 568816005266 tape measure domain; Region: tape_meas_nterm; TIGR02675 568816005267 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 568816005268 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 568816005269 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 568816005270 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 568816005271 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 568816005272 oligomerization interface [polypeptide binding]; other site 568816005273 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 568816005274 Phage capsid family; Region: Phage_capsid; pfam05065 568816005275 Clp protease; Region: CLP_protease; pfam00574 568816005276 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 568816005277 oligomer interface [polypeptide binding]; other site 568816005278 active site residues [active] 568816005279 Phage-related protein [Function unknown]; Region: COG4695 568816005280 Phage portal protein; Region: Phage_portal; pfam04860 568816005281 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568816005282 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 568816005283 non-specific DNA binding site [nucleotide binding]; other site 568816005284 salt bridge; other site 568816005285 sequence-specific DNA binding site [nucleotide binding]; other site 568816005286 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 568816005287 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 568816005288 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 568816005289 ParB-like nuclease domain; Region: ParBc; pfam02195 568816005290 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 568816005291 DNA methylase; Region: N6_N4_Mtase; pfam01555 568816005292 Phage terminase, small subunit; Region: Terminase_4; cl01525 568816005293 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816005294 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 568816005295 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 568816005296 D5 N terminal like; Region: D5_N; pfam08706 568816005297 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 568816005298 Virulence-associated protein E; Region: VirE; pfam05272 568816005299 Prophage antirepressor [Transcription]; Region: COG3617 568816005300 BRO family, N-terminal domain; Region: Bro-N; smart01040 568816005301 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 568816005302 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 568816005303 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; cl17257 568816005304 AAA domain; Region: AAA_13; pfam13166 568816005305 hypothetical protein; Provisional; Region: PRK06762 568816005306 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 568816005307 sequence-specific DNA binding site [nucleotide binding]; other site 568816005308 salt bridge; other site 568816005309 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 568816005310 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 568816005311 putative trimer interface [polypeptide binding]; other site 568816005312 putative CoA binding site [chemical binding]; other site 568816005313 YadA-like C-terminal region; Region: YadA; pfam03895 568816005314 S-layer homology domain; Region: SLH; pfam00395 568816005315 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816005316 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 568816005317 catalytic residues [active] 568816005318 catalytic nucleophile [active] 568816005319 Recombinase; Region: Recombinase; pfam07508 568816005320 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005321 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 568816005322 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 568816005323 catalytic residues [active] 568816005324 catalytic nucleophile [active] 568816005325 Recombinase; Region: Recombinase; pfam07508 568816005326 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005327 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 568816005328 Domain of unknown function (DUF329); Region: DUF329; cl01144 568816005329 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 568816005330 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 568816005331 active site 568816005332 metal binding site [ion binding]; metal-binding site 568816005333 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 568816005334 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 568816005335 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 568816005336 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 568816005337 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 568816005338 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 568816005339 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 568816005340 Phage XkdN-like protein; Region: XkdN; pfam08890 568816005341 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 568816005342 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 568816005343 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 568816005344 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 568816005345 oligomerization interface [polypeptide binding]; other site 568816005346 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 568816005347 Phage capsid family; Region: Phage_capsid; pfam05065 568816005348 Clp protease; Region: CLP_protease; pfam00574 568816005349 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 568816005350 oligomer interface [polypeptide binding]; other site 568816005351 active site residues [active] 568816005352 Phage-related protein [Function unknown]; Region: COG4695 568816005353 Phage portal protein; Region: Phage_portal; pfam04860 568816005354 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 568816005355 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 568816005356 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 568816005357 Phage terminase, small subunit; Region: Terminase_4; pfam05119 568816005358 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 568816005359 putative active site pocket [active] 568816005360 dimerization interface [polypeptide binding]; other site 568816005361 putative catalytic residue [active] 568816005362 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 568816005363 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 568816005364 ParB-like nuclease domain; Region: ParBc; pfam02195 568816005365 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 568816005366 DNA methylase; Region: N6_N4_Mtase; cl17433 568816005367 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 568816005368 Abi-like protein; Region: Abi_2; pfam07751 568816005369 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 568816005370 active site 568816005371 Restriction endonuclease; Region: Mrr_cat; pfam04471 568816005372 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 568816005373 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 568816005374 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 568816005375 ATP binding site [chemical binding]; other site 568816005376 putative Mg++ binding site [ion binding]; other site 568816005377 VRR-NUC domain; Region: VRR_NUC; pfam08774 568816005378 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 568816005379 D5 N terminal like; Region: D5_N; pfam08706 568816005380 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 568816005381 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 568816005382 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 568816005383 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 568816005384 active site 568816005385 DNA binding site [nucleotide binding] 568816005386 catalytic site [active] 568816005387 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 568816005388 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 568816005389 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 568816005390 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568816005391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568816005392 AAA domain; Region: AAA_23; pfam13476 568816005393 Walker A/P-loop; other site 568816005394 ATP binding site [chemical binding]; other site 568816005395 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 568816005396 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 568816005397 FAD binding pocket [chemical binding]; other site 568816005398 conserved FAD binding motif [chemical binding]; other site 568816005399 phosphate binding motif [ion binding]; other site 568816005400 beta-alpha-beta structure motif; other site 568816005401 NAD binding pocket [chemical binding]; other site 568816005402 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 568816005403 AAA domain; Region: AAA_30; pfam13604 568816005404 Family description; Region: UvrD_C_2; pfam13538 568816005405 Predicted transcriptional regulators [Transcription]; Region: COG1733 568816005406 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 568816005407 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 568816005408 NADH(P)-binding; Region: NAD_binding_10; pfam13460 568816005409 NAD binding site [chemical binding]; other site 568816005410 substrate binding site [chemical binding]; other site 568816005411 putative active site [active] 568816005412 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568816005413 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 568816005414 motif II; other site 568816005415 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 568816005416 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005417 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005418 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 568816005419 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005420 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 568816005421 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005422 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 568816005423 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568816005424 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 568816005425 motif II; other site 568816005426 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 568816005427 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005428 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 568816005429 binding surface 568816005430 TPR motif; other site 568816005431 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005432 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 568816005433 binding surface 568816005434 TPR motif; other site 568816005435 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005436 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005437 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816005438 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816005439 dimer interface [polypeptide binding]; other site 568816005440 active site 568816005441 metal binding site [ion binding]; metal-binding site 568816005442 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 568816005443 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 568816005444 Walker A motif; other site 568816005445 ATP binding site [chemical binding]; other site 568816005446 Walker B motif; other site 568816005447 arginine finger; other site 568816005448 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 568816005449 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 568816005450 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568816005451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816005452 BCCT family transporter; Region: BCCT; pfam02028 568816005453 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 568816005454 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 568816005455 FeS/SAM binding site; other site 568816005456 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 568816005457 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 568816005458 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 568816005459 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 568816005460 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005461 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005462 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 568816005463 binding surface 568816005464 TPR motif; other site 568816005465 Tetratricopeptide repeat; Region: TPR_12; pfam13424 568816005466 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816005467 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816005468 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 568816005469 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 568816005470 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816005471 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 568816005472 dimer interface [polypeptide binding]; other site 568816005473 PYR/PP interface [polypeptide binding]; other site 568816005474 TPP binding site [chemical binding]; other site 568816005475 substrate binding site [chemical binding]; other site 568816005476 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 568816005477 Domain of unknown function; Region: EKR; smart00890 568816005478 4Fe-4S binding domain; Region: Fer4_6; pfam12837 568816005479 4Fe-4S binding domain; Region: Fer4; pfam00037 568816005480 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 568816005481 TPP-binding site [chemical binding]; other site 568816005482 dimer interface [polypeptide binding]; other site 568816005483 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 568816005484 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568816005485 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 568816005486 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 568816005487 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 568816005488 FAD binding pocket [chemical binding]; other site 568816005489 FAD binding motif [chemical binding]; other site 568816005490 phosphate binding motif [ion binding]; other site 568816005491 beta-alpha-beta structure motif; other site 568816005492 NAD binding pocket [chemical binding]; other site 568816005493 Iron coordination center [ion binding]; other site 568816005494 putative oxidoreductase; Provisional; Region: PRK12831 568816005495 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 568816005496 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568816005497 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 568816005498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816005499 NAD binding site [chemical binding]; other site 568816005500 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 568816005501 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 568816005502 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 568816005503 Coenzyme A binding pocket [chemical binding]; other site 568816005504 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 568816005505 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 568816005506 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 568816005507 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 568816005508 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816005509 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 568816005510 dimer interface [polypeptide binding]; other site 568816005511 phosphorylation site [posttranslational modification] 568816005512 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 568816005513 ATP binding site [chemical binding]; other site 568816005514 Mg2+ binding site [ion binding]; other site 568816005515 G-X-G motif; other site 568816005516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816005517 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 568816005518 active site 568816005519 phosphorylation site [posttranslational modification] 568816005520 intermolecular recognition site; other site 568816005521 dimerization interface [polypeptide binding]; other site 568816005522 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 568816005523 DNA binding site [nucleotide binding] 568816005524 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 568816005525 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 568816005526 Isochorismatase family; Region: Isochorismatase; pfam00857 568816005527 catalytic triad [active] 568816005528 conserved cis-peptide bond; other site 568816005529 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 568816005530 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 568816005531 active site 568816005532 catalytic tetrad [active] 568816005533 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 568816005534 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 568816005535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816005536 Coenzyme A binding pocket [chemical binding]; other site 568816005537 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 568816005538 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 568816005539 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 568816005540 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816005541 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 568816005542 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 568816005543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005544 homodimer interface [polypeptide binding]; other site 568816005545 catalytic residue [active] 568816005546 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 568816005547 homotrimer interaction site [polypeptide binding]; other site 568816005548 putative active site [active] 568816005549 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568816005550 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 568816005551 non-specific DNA binding site [nucleotide binding]; other site 568816005552 salt bridge; other site 568816005553 sequence-specific DNA binding site [nucleotide binding]; other site 568816005554 DNA binding domain, excisionase family; Region: excise; TIGR01764 568816005555 Helix-turn-helix domain; Region: HTH_17; pfam12728 568816005556 Helix-turn-helix domain; Region: HTH_17; cl17695 568816005557 Helix-turn-helix domain; Region: HTH_17; pfam12728 568816005558 S-ribosylhomocysteinase; Provisional; Region: PRK02260 568816005559 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 568816005560 hexamer interface [polypeptide binding]; other site 568816005561 RNA binding site [nucleotide binding]; other site 568816005562 Histidine-zinc binding site [chemical binding]; other site 568816005563 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 568816005564 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 568816005565 dimer interface [polypeptide binding]; other site 568816005566 putative radical transfer pathway; other site 568816005567 diiron center [ion binding]; other site 568816005568 tyrosyl radical; other site 568816005569 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 568816005570 ATP cone domain; Region: ATP-cone; pfam03477 568816005571 Class I ribonucleotide reductase; Region: RNR_I; cd01679 568816005572 active site 568816005573 dimer interface [polypeptide binding]; other site 568816005574 catalytic residues [active] 568816005575 effector binding site; other site 568816005576 R2 peptide binding site; other site 568816005577 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 568816005578 active site 568816005579 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 568816005580 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 568816005581 DHHA2 domain; Region: DHHA2; pfam02833 568816005582 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 568816005583 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568816005584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 568816005585 YbbR-like protein; Region: YbbR; pfam07949 568816005586 Uncharacterized conserved protein [Function unknown]; Region: COG1624 568816005587 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 568816005588 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005589 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 568816005590 metal binding site [ion binding]; metal-binding site 568816005591 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816005592 argininosuccinate lyase; Provisional; Region: PRK00855 568816005593 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 568816005594 active sites [active] 568816005595 tetramer interface [polypeptide binding]; other site 568816005596 argininosuccinate synthase; Provisional; Region: PRK13820 568816005597 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 568816005598 ANP binding site [chemical binding]; other site 568816005599 Substrate Binding Site II [chemical binding]; other site 568816005600 Substrate Binding Site I [chemical binding]; other site 568816005601 ornithine carbamoyltransferase; Provisional; Region: PRK00779 568816005602 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568816005603 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 568816005604 acetylornithine aminotransferase; Provisional; Region: PRK02627 568816005605 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 568816005606 inhibitor-cofactor binding pocket; inhibition site 568816005607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005608 catalytic residue [active] 568816005609 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 568816005610 feedback inhibition sensing region; other site 568816005611 homohexameric interface [polypeptide binding]; other site 568816005612 nucleotide binding site [chemical binding]; other site 568816005613 N-acetyl-L-glutamate binding site [chemical binding]; other site 568816005614 Transglycosylase; Region: Transgly; pfam00912 568816005615 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 568816005616 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 568816005617 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 568816005618 dimer interface [polypeptide binding]; other site 568816005619 active site 568816005620 WYL domain; Region: WYL; pfam13280 568816005621 HTH-like domain; Region: HTH_21; pfam13276 568816005622 Integrase core domain; Region: rve; pfam00665 568816005623 Integrase core domain; Region: rve_2; pfam13333 568816005624 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 568816005625 allantoate amidohydrolase; Reviewed; Region: PRK09290 568816005626 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 568816005627 active site 568816005628 metal binding site [ion binding]; metal-binding site 568816005629 dimer interface [polypeptide binding]; other site 568816005630 isocitrate dehydrogenase; Validated; Region: PRK08299 568816005631 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 568816005632 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 568816005633 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568816005634 catalytic residue [active] 568816005635 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 568816005636 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 568816005637 CoA-binding site [chemical binding]; other site 568816005638 ATP-binding [chemical binding]; other site 568816005639 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 568816005640 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 568816005641 DNA binding site [nucleotide binding] 568816005642 catalytic residue [active] 568816005643 H2TH interface [polypeptide binding]; other site 568816005644 putative catalytic residues [active] 568816005645 turnover-facilitating residue; other site 568816005646 intercalation triad [nucleotide binding]; other site 568816005647 8OG recognition residue [nucleotide binding]; other site 568816005648 putative reading head residues; other site 568816005649 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 568816005650 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 568816005651 DNA polymerase I; Provisional; Region: PRK05755 568816005652 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 568816005653 active site 568816005654 metal binding site 1 [ion binding]; metal-binding site 568816005655 putative 5' ssDNA interaction site; other site 568816005656 metal binding site 3; metal-binding site 568816005657 metal binding site 2 [ion binding]; metal-binding site 568816005658 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 568816005659 putative DNA binding site [nucleotide binding]; other site 568816005660 putative metal binding site [ion binding]; other site 568816005661 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 568816005662 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 568816005663 active site 568816005664 DNA binding site [nucleotide binding] 568816005665 catalytic site [active] 568816005666 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 568816005667 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 568816005668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005669 homodimer interface [polypeptide binding]; other site 568816005670 catalytic residue [active] 568816005671 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 568816005672 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816005673 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816005674 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 568816005675 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 568816005676 arsenical-resistance protein; Region: acr3; TIGR00832 568816005677 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 568816005678 dimerization interface [polypeptide binding]; other site 568816005679 putative DNA binding site [nucleotide binding]; other site 568816005680 putative Zn2+ binding site [ion binding]; other site 568816005681 MoxR-like ATPases [General function prediction only]; Region: COG0714 568816005682 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 568816005683 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 568816005684 metal ion-dependent adhesion site (MIDAS); other site 568816005685 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 568816005686 thiS-thiF/thiG interaction site; other site 568816005687 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 568816005688 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 568816005689 ATP binding site [chemical binding]; other site 568816005690 substrate interface [chemical binding]; other site 568816005691 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 568816005692 ThiS interaction site; other site 568816005693 putative active site [active] 568816005694 tetramer interface [polypeptide binding]; other site 568816005695 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 568816005696 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 568816005697 FeS/SAM binding site; other site 568816005698 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 568816005699 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 568816005700 thiamine phosphate binding site [chemical binding]; other site 568816005701 active site 568816005702 pyrophosphate binding site [ion binding]; other site 568816005703 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 568816005704 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568816005705 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568816005706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816005708 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 568816005709 dimerization interface [polypeptide binding]; other site 568816005710 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 568816005711 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 568816005712 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568816005713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816005715 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 568816005716 dimerization interface [polypeptide binding]; other site 568816005717 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568816005718 DctM-like transporters; Region: DctM; pfam06808 568816005719 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568816005720 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568816005721 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 568816005722 putative metallo-dependent hydrolase; Provisional; Region: PRK12394 568816005723 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 568816005724 active site 568816005725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816005726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816005727 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 568816005728 dimerization interface [polypeptide binding]; other site 568816005729 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 568816005730 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 568816005731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568816005732 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 568816005733 Predicted dehydrogenase [General function prediction only]; Region: COG0579 568816005734 hydroxyglutarate oxidase; Provisional; Region: PRK11728 568816005735 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 568816005736 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 568816005737 transmembrane helices; other site 568816005738 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568816005739 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 568816005740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816005741 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568816005742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568816005743 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 568816005744 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 568816005745 DctM-like transporters; Region: DctM; pfam06808 568816005746 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 568816005747 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568816005748 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 568816005749 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 568816005750 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 568816005751 N-terminal plug; other site 568816005752 ligand-binding site [chemical binding]; other site 568816005753 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816005754 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816005755 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816005756 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 568816005757 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 568816005758 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 568816005759 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 568816005760 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 568816005761 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 568816005762 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 568816005763 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 568816005764 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 568816005765 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 568816005766 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 568816005767 G-loop; other site 568816005768 DNA binding site [nucleotide binding] 568816005769 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 568816005770 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 568816005771 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 568816005772 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 568816005773 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 568816005774 RPB1 interaction site [polypeptide binding]; other site 568816005775 RPB10 interaction site [polypeptide binding]; other site 568816005776 RPB11 interaction site [polypeptide binding]; other site 568816005777 RPB3 interaction site [polypeptide binding]; other site 568816005778 RPB12 interaction site [polypeptide binding]; other site 568816005779 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 568816005780 Sel1-like repeats; Region: SEL1; smart00671 568816005781 Sel1-like repeats; Region: SEL1; smart00671 568816005782 putative transposase OrfB; Reviewed; Region: PHA02517 568816005783 HTH-like domain; Region: HTH_21; pfam13276 568816005784 Integrase core domain; Region: rve; pfam00665 568816005785 Integrase core domain; Region: rve_2; pfam13333 568816005786 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 568816005787 Protein of unknown function (DUF464); Region: DUF464; pfam04327 568816005788 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 568816005789 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 568816005790 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568816005791 EamA-like transporter family; Region: EamA; pfam00892 568816005792 EamA-like transporter family; Region: EamA; pfam00892 568816005793 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 568816005794 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 568816005795 GatB domain; Region: GatB_Yqey; smart00845 568816005796 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568816005797 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 568816005798 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 568816005799 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 568816005800 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 568816005801 homodimer interface [polypeptide binding]; other site 568816005802 substrate-cofactor binding pocket; other site 568816005803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005804 catalytic residue [active] 568816005805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816005806 Coenzyme A binding pocket [chemical binding]; other site 568816005807 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 568816005808 DALR anticodon binding domain; Region: DALR_1; pfam05746 568816005809 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 568816005810 dimer interface [polypeptide binding]; other site 568816005811 motif 1; other site 568816005812 active site 568816005813 motif 2; other site 568816005814 motif 3; other site 568816005815 Amino acid permease; Region: AA_permease_2; pfam13520 568816005816 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 568816005817 putative metal binding site; other site 568816005818 Sulfatase; Region: Sulfatase; cl17466 568816005819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816005820 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816005821 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816005822 Predicted membrane protein [Function unknown]; Region: COG1288 568816005823 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 568816005824 glutamate carboxypeptidase; Reviewed; Region: PRK06133 568816005825 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816005826 metal binding site [ion binding]; metal-binding site 568816005827 dimer interface [polypeptide binding]; other site 568816005828 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 568816005829 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 568816005830 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568816005831 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 568816005832 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 568816005833 DNA binding residues [nucleotide binding] 568816005834 CHC2 zinc finger; Region: zf-CHC2; cl17510 568816005835 DNA primase; Validated; Region: dnaG; PRK05667 568816005836 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 568816005837 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 568816005838 active site 568816005839 metal binding site [ion binding]; metal-binding site 568816005840 interdomain interaction site; other site 568816005841 OstA-like protein; Region: OstA; cl00844 568816005842 PEP synthetase regulatory protein; Provisional; Region: PRK05339 568816005843 HTH domain; Region: HTH_11; pfam08279 568816005844 FOG: CBS domain [General function prediction only]; Region: COG0517 568816005845 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 568816005846 phosphoenolpyruvate synthase; Validated; Region: PRK06464 568816005847 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 568816005848 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 568816005849 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 568816005850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 568816005851 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 568816005852 Peptidase family M48; Region: Peptidase_M48; cl12018 568816005853 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 568816005854 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 568816005855 ABC-ATPase subunit interface; other site 568816005856 dimer interface [polypeptide binding]; other site 568816005857 putative PBP binding regions; other site 568816005858 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 568816005859 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816005860 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 568816005861 Transcriptional regulators [Transcription]; Region: MarR; COG1846 568816005862 MarR family; Region: MarR_2; pfam12802 568816005863 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568816005864 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 568816005865 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 568816005866 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 568816005867 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 568816005868 OPT oligopeptide transporter protein; Region: OPT; cl14607 568816005869 putative oligopeptide transporter, OPT family; Region: TIGR00733 568816005870 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 568816005871 substrate binding site [chemical binding]; other site 568816005872 active site 568816005873 catalytic residues [active] 568816005874 heterodimer interface [polypeptide binding]; other site 568816005875 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 568816005876 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 568816005877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816005878 catalytic residue [active] 568816005879 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 568816005880 active site 568816005881 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 568816005882 active site 568816005883 ribulose/triose binding site [chemical binding]; other site 568816005884 phosphate binding site [ion binding]; other site 568816005885 substrate (anthranilate) binding pocket [chemical binding]; other site 568816005886 product (indole) binding pocket [chemical binding]; other site 568816005887 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 568816005888 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 568816005889 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 568816005890 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 568816005891 Glutamine amidotransferase class-I; Region: GATase; pfam00117 568816005892 glutamine binding [chemical binding]; other site 568816005893 catalytic triad [active] 568816005894 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 568816005895 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 568816005896 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 568816005897 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 568816005898 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 568816005899 putative metal binding site [ion binding]; other site 568816005900 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005901 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 568816005902 metal binding site [ion binding]; metal-binding site 568816005903 dimer interface [polypeptide binding]; other site 568816005904 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568816005905 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 568816005906 dimer interface [polypeptide binding]; other site 568816005907 conserved gate region; other site 568816005908 ABC-ATPase subunit interface; other site 568816005909 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 568816005910 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 568816005911 Walker A/P-loop; other site 568816005912 ATP binding site [chemical binding]; other site 568816005913 Q-loop/lid; other site 568816005914 ABC transporter signature motif; other site 568816005915 Walker B; other site 568816005916 D-loop; other site 568816005917 H-loop/switch region; other site 568816005918 NIL domain; Region: NIL; pfam09383 568816005919 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816005920 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 568816005921 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 568816005922 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 568816005923 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 568816005924 Predicted permease [General function prediction only]; Region: COG2985 568816005925 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 568816005926 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 568816005927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816005928 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 568816005929 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816005930 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816005931 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 568816005932 metal binding site [ion binding]; metal-binding site 568816005933 dimer interface [polypeptide binding]; other site 568816005934 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 568816005935 transcriptional regulator NanR; Provisional; Region: PRK03837 568816005936 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568816005937 DNA-binding site [nucleotide binding]; DNA binding site 568816005938 FCD domain; Region: FCD; pfam07729 568816005939 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 568816005940 core dimer interface [polypeptide binding]; other site 568816005941 peripheral dimer interface [polypeptide binding]; other site 568816005942 L10 interface [polypeptide binding]; other site 568816005943 L11 interface [polypeptide binding]; other site 568816005944 putative EF-Tu interaction site [polypeptide binding]; other site 568816005945 putative EF-G interaction site [polypeptide binding]; other site 568816005946 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 568816005947 23S rRNA interface [nucleotide binding]; other site 568816005948 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 568816005949 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 568816005950 mRNA/rRNA interface [nucleotide binding]; other site 568816005951 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 568816005952 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 568816005953 23S rRNA interface [nucleotide binding]; other site 568816005954 L7/L12 interface [polypeptide binding]; other site 568816005955 putative thiostrepton binding site; other site 568816005956 L25 interface [polypeptide binding]; other site 568816005957 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 568816005958 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 568816005959 putative homodimer interface [polypeptide binding]; other site 568816005960 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 568816005961 heterodimer interface [polypeptide binding]; other site 568816005962 homodimer interface [polypeptide binding]; other site 568816005963 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 568816005964 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 568816005965 elongation factor Tu; Reviewed; Region: PRK00049 568816005966 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 568816005967 G1 box; other site 568816005968 GEF interaction site [polypeptide binding]; other site 568816005969 GTP/Mg2+ binding site [chemical binding]; other site 568816005970 Switch I region; other site 568816005971 G2 box; other site 568816005972 G3 box; other site 568816005973 Switch II region; other site 568816005974 G4 box; other site 568816005975 G5 box; other site 568816005976 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 568816005977 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 568816005978 Antibiotic Binding Site [chemical binding]; other site 568816005979 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 568816005980 6-phosphofructokinase; Provisional; Region: PRK03202 568816005981 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 568816005982 active site 568816005983 ADP/pyrophosphate binding site [chemical binding]; other site 568816005984 dimerization interface [polypeptide binding]; other site 568816005985 allosteric effector site; other site 568816005986 fructose-1,6-bisphosphate binding site; other site 568816005987 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 568816005988 active site 568816005989 RNA polymerase factor sigma-70; Validated; Region: PRK08295 568816005990 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568816005991 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 568816005992 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 568816005993 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 568816005994 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 568816005995 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 568816005996 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816005997 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568816005998 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816005999 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816006000 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 568816006001 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 568816006002 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 568816006003 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 568816006004 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 568816006005 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568816006006 lipoyl-biotinyl attachment site [posttranslational modification]; other site 568816006007 HlyD family secretion protein; Region: HlyD_3; pfam13437 568816006008 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568816006009 FAD binding domain; Region: FAD_binding_4; pfam01565 568816006010 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 568816006011 substrate binding site [chemical binding]; other site 568816006012 THF binding site; other site 568816006013 zinc-binding site [ion binding]; other site 568816006014 biotin synthase; Provisional; Region: PRK07094 568816006015 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 568816006016 FeS/SAM binding site; other site 568816006017 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 568816006018 amino acid transporter; Region: 2A0306; TIGR00909 568816006019 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 568816006020 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 568816006021 catalytic triad [active] 568816006022 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 568816006023 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 568816006024 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 568816006025 substrate binding pocket [chemical binding]; other site 568816006026 dimer interface [polypeptide binding]; other site 568816006027 inhibitor binding site; inhibition site 568816006028 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 568816006029 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 568816006030 B12 binding site [chemical binding]; other site 568816006031 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 568816006032 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 568816006033 FAD binding site [chemical binding]; other site 568816006034 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816006035 Isochorismatase family; Region: Isochorismatase; pfam00857 568816006036 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 568816006037 catalytic triad [active] 568816006038 dimer interface [polypeptide binding]; other site 568816006039 conserved cis-peptide bond; other site 568816006040 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 568816006041 peptidase T; Region: peptidase-T; TIGR01882 568816006042 metal binding site [ion binding]; metal-binding site 568816006043 dimer interface [polypeptide binding]; other site 568816006044 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816006045 active site 568816006046 polyphosphate kinase; Provisional; Region: PRK05443 568816006047 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 568816006048 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 568816006049 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 568816006050 putative domain interface [polypeptide binding]; other site 568816006051 putative active site [active] 568816006052 catalytic site [active] 568816006053 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 568816006054 putative domain interface [polypeptide binding]; other site 568816006055 putative active site [active] 568816006056 catalytic site [active] 568816006057 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 568816006058 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 568816006059 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 568816006060 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 568816006061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006063 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 568816006064 dimerization interface [polypeptide binding]; other site 568816006065 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 568816006066 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 568816006067 Predicted membrane protein [Function unknown]; Region: COG1288 568816006068 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 568816006069 hypothetical protein; Provisional; Region: PRK07205 568816006070 active site 568816006071 metal binding site [ion binding]; metal-binding site 568816006072 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 568816006073 active site 568816006074 Transcriptional regulator; Region: Rrf2; cl17282 568816006075 Rrf2 family protein; Region: rrf2_super; TIGR00738 568816006076 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006078 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 568816006079 dimerization interface [polypeptide binding]; other site 568816006080 Dehydratase family; Region: ILVD_EDD; pfam00920 568816006081 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 568816006082 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 568816006083 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568816006084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568816006085 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 568816006086 catalytic loop [active] 568816006087 iron binding site [ion binding]; other site 568816006088 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 568816006089 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 568816006090 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 568816006091 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 568816006092 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 568816006093 putative substrate binding pocket [chemical binding]; other site 568816006094 AC domain interface; other site 568816006095 catalytic triad [active] 568816006096 AB domain interface; other site 568816006097 interchain disulfide; other site 568816006098 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 568816006099 Double zinc ribbon; Region: DZR; pfam12773 568816006100 Protein of unknown function (DUF805); Region: DUF805; pfam05656 568816006101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568816006102 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 568816006103 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 568816006104 amidase catalytic site [active] 568816006105 Zn binding residues [ion binding]; other site 568816006106 substrate binding site [chemical binding]; other site 568816006107 Protein of unknown function (DUF805); Region: DUF805; pfam05656 568816006108 Protein of unknown function (DUF523); Region: DUF523; pfam04463 568816006109 DctM-like transporters; Region: DctM; pfam06808 568816006110 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568816006111 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816006112 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 568816006113 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568816006114 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568816006115 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 568816006116 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 568816006117 substrate binding site [chemical binding]; other site 568816006118 Predicted aconitase [General function prediction only]; Region: COG1679 568816006119 Protein of unknown function (DUF521); Region: DUF521; pfam04412 568816006120 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006122 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 568816006123 dimerization interface [polypeptide binding]; other site 568816006124 bifunctional formaldehyde-activating enzyme/3-hexulose-6-phosphate synthase; Provisional; Region: PRK13307 568816006125 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14610 568816006126 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 568816006127 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568816006128 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 568816006129 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 568816006130 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816006131 metal binding site [ion binding]; metal-binding site 568816006132 Predicted membrane protein [Function unknown]; Region: COG1288 568816006133 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 568816006134 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568816006135 hypothetical protein; Provisional; Region: PRK07338 568816006136 metal binding site [ion binding]; metal-binding site 568816006137 dimer interface [polypeptide binding]; other site 568816006138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006140 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 568816006141 dimerization interface [polypeptide binding]; other site 568816006142 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568816006143 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568816006144 DNA binding site [nucleotide binding] 568816006145 domain linker motif; other site 568816006146 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 568816006147 ligand binding site [chemical binding]; other site 568816006148 dimerization interface [polypeptide binding]; other site 568816006149 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 568816006150 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 568816006151 inhibitor site; inhibition site 568816006152 active site 568816006153 dimer interface [polypeptide binding]; other site 568816006154 catalytic residue [active] 568816006155 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 568816006156 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 568816006157 S-layer homology domain; Region: SLH; pfam00395 568816006158 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 568816006159 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 568816006160 dimer interface [polypeptide binding]; other site 568816006161 PYR/PP interface [polypeptide binding]; other site 568816006162 TPP binding site [chemical binding]; other site 568816006163 substrate binding site [chemical binding]; other site 568816006164 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 568816006165 Domain of unknown function; Region: EKR; pfam10371 568816006166 4Fe-4S binding domain; Region: Fer4; pfam00037 568816006167 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 568816006168 TPP-binding site [chemical binding]; other site 568816006169 dimer interface [polypeptide binding]; other site 568816006170 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 568816006171 active site 568816006172 catalytic site [active] 568816006173 substrate binding site [chemical binding]; other site 568816006174 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 568816006175 S1 domain; Region: S1_2; pfam13509 568816006176 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 568816006177 Oligomerisation domain; Region: Oligomerisation; pfam02410 568816006178 Transcriptional regulator [Transcription]; Region: LytR; COG1316 568816006179 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568816006180 Zn2+ binding site [ion binding]; other site 568816006181 Mg2+ binding site [ion binding]; other site 568816006182 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 568816006183 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 568816006184 active site 568816006185 (T/H)XGH motif; other site 568816006186 histidinol-phosphatase; Provisional; Region: PRK05588 568816006187 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 568816006188 active site 568816006189 YchF GTPase; Region: YchF; cd01900 568816006190 GTP-binding protein YchF; Reviewed; Region: PRK09601 568816006191 G1 box; other site 568816006192 GTP/Mg2+ binding site [chemical binding]; other site 568816006193 Switch I region; other site 568816006194 G2 box; other site 568816006195 Switch II region; other site 568816006196 G3 box; other site 568816006197 G4 box; other site 568816006198 G5 box; other site 568816006199 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 568816006200 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 568816006201 MgtE intracellular N domain; Region: MgtE_N; pfam03448 568816006202 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 568816006203 Divalent cation transporter; Region: MgtE; pfam01769 568816006204 Uncharacterized conserved protein [Function unknown]; Region: COG3589 568816006205 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 568816006206 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 568816006207 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 568816006208 active site turn [active] 568816006209 phosphorylation site [posttranslational modification] 568816006210 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 568816006211 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 568816006212 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 568816006213 putative active site [active] 568816006214 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 568816006215 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 568816006216 active site 568816006217 dimer interface [polypeptide binding]; other site 568816006218 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 568816006219 Predicted transcriptional regulator [Transcription]; Region: COG1959 568816006220 Transcriptional regulator; Region: Rrf2; pfam02082 568816006221 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 568816006222 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 568816006223 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 568816006224 alphaNTD homodimer interface [polypeptide binding]; other site 568816006225 alphaNTD - beta interaction site [polypeptide binding]; other site 568816006226 alphaNTD - beta' interaction site [polypeptide binding]; other site 568816006227 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 568816006228 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 568816006229 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 568816006230 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 568816006231 RNA binding surface [nucleotide binding]; other site 568816006232 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 568816006233 30S ribosomal protein S13; Region: bact_S13; TIGR03631 568816006234 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 568816006235 rRNA binding site [nucleotide binding]; other site 568816006236 predicted 30S ribosome binding site; other site 568816006237 adenylate kinase; Reviewed; Region: adk; PRK00279 568816006238 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 568816006239 AMP-binding site [chemical binding]; other site 568816006240 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 568816006241 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 568816006242 SecY translocase; Region: SecY; pfam00344 568816006243 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 568816006244 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 568816006245 23S rRNA binding site [nucleotide binding]; other site 568816006246 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 568816006247 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 568816006248 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 568816006249 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 568816006250 5S rRNA interface [nucleotide binding]; other site 568816006251 L27 interface [polypeptide binding]; other site 568816006252 23S rRNA interface [nucleotide binding]; other site 568816006253 L5 interface [polypeptide binding]; other site 568816006254 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 568816006255 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 568816006256 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 568816006257 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 568816006258 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 568816006259 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 568816006260 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 568816006261 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 568816006262 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 568816006263 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 568816006264 RNA binding site [nucleotide binding]; other site 568816006265 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 568816006266 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 568816006267 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 568816006268 putative translocon interaction site; other site 568816006269 signal recognition particle (SRP54) interaction site; other site 568816006270 L23 interface [polypeptide binding]; other site 568816006271 trigger factor interaction site; other site 568816006272 23S rRNA interface [nucleotide binding]; other site 568816006273 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 568816006274 5S rRNA interface [nucleotide binding]; other site 568816006275 23S rRNA interface [nucleotide binding]; other site 568816006276 putative antibiotic binding site [chemical binding]; other site 568816006277 L25 interface [polypeptide binding]; other site 568816006278 L27 interface [polypeptide binding]; other site 568816006279 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 568816006280 30S ribosomal protein S3P; Reviewed; Region: rps3p; PRK04191 568816006281 G-X-X-G motif; other site 568816006282 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 568816006283 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 568816006284 putative translocon binding site; other site 568816006285 protein-rRNA interface [nucleotide binding]; other site 568816006286 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 568816006287 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 568816006288 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 568816006289 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 568816006290 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 568816006291 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 568816006292 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 568816006293 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 568816006294 elongation factor Tu; Reviewed; Region: PRK00049 568816006295 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 568816006296 G1 box; other site 568816006297 GEF interaction site [polypeptide binding]; other site 568816006298 GTP/Mg2+ binding site [chemical binding]; other site 568816006299 Switch I region; other site 568816006300 G2 box; other site 568816006301 G3 box; other site 568816006302 Switch II region; other site 568816006303 G4 box; other site 568816006304 G5 box; other site 568816006305 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 568816006306 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 568816006307 Antibiotic Binding Site [chemical binding]; other site 568816006308 elongation factor G; Reviewed; Region: PRK00007 568816006309 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 568816006310 G1 box; other site 568816006311 putative GEF interaction site [polypeptide binding]; other site 568816006312 GTP/Mg2+ binding site [chemical binding]; other site 568816006313 Switch I region; other site 568816006314 G2 box; other site 568816006315 G3 box; other site 568816006316 Switch II region; other site 568816006317 G4 box; other site 568816006318 G5 box; other site 568816006319 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 568816006320 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 568816006321 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 568816006322 30S ribosomal protein S7; Validated; Region: PRK05302 568816006323 30S ribosomal protein S12; Validated; Region: rpsL; PRK05163 568816006324 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 568816006325 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 568816006326 Cupin domain; Region: Cupin_2; cl17218 568816006327 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 568816006328 Uncharacterized conserved protein [Function unknown]; Region: COG2966 568816006329 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 568816006330 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 568816006331 putative uracil binding site [chemical binding]; other site 568816006332 putative active site [active] 568816006333 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 568816006334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568816006335 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568816006336 ABC transporter; Region: ABC_tran_2; pfam12848 568816006337 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568816006338 ABC transporter; Region: ABC_tran_2; pfam12848 568816006339 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 568816006340 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 568816006341 NAD binding site [chemical binding]; other site 568816006342 homodimer interface [polypeptide binding]; other site 568816006343 active site 568816006344 substrate binding site [chemical binding]; other site 568816006345 phosphomannomutase CpsG; Provisional; Region: PRK15414 568816006346 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 568816006347 active site 568816006348 substrate binding site [chemical binding]; other site 568816006349 metal binding site [ion binding]; metal-binding site 568816006350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 568816006351 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 568816006352 Transposase; Region: DDE_Tnp_ISL3; pfam01610 568816006353 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 568816006354 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 568816006355 Walker A motif; other site 568816006356 ATP binding site [chemical binding]; other site 568816006357 Walker B motif; other site 568816006358 arginine finger; other site 568816006359 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 568816006360 putative YPXnL-motif binding site; other site 568816006361 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 568816006362 Walker A motif; other site 568816006363 ATP binding site [chemical binding]; other site 568816006364 Walker B motif; other site 568816006365 arginine finger; other site 568816006366 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 568816006367 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 568816006368 putative active site [active] 568816006369 putative metal binding residues [ion binding]; other site 568816006370 signature motif; other site 568816006371 putative triphosphate binding site [ion binding]; other site 568816006372 Flavin Reductases; Region: FlaRed; cl00801 568816006373 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 568816006374 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 568816006375 active site 568816006376 metal binding site [ion binding]; metal-binding site 568816006377 dimer interface [polypeptide binding]; other site 568816006378 putative transposase OrfB; Reviewed; Region: PHA02517 568816006379 HTH-like domain; Region: HTH_21; pfam13276 568816006380 Integrase core domain; Region: rve; pfam00665 568816006381 Integrase core domain; Region: rve_2; pfam13333 568816006382 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 568816006383 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 568816006384 NAD(P) binding site [chemical binding]; other site 568816006385 catalytic residues [active] 568816006386 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 568816006387 dimerization interface [polypeptide binding]; other site 568816006388 putative DNA binding site [nucleotide binding]; other site 568816006389 putative Zn2+ binding site [ion binding]; other site 568816006390 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 568816006391 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 568816006392 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568816006393 classical (c) SDRs; Region: SDR_c; cd05233 568816006394 NAD(P) binding site [chemical binding]; other site 568816006395 active site 568816006396 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 568816006397 DNA-binding site [nucleotide binding]; DNA binding site 568816006398 RNA-binding motif; other site 568816006399 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 568816006400 putative active site [active] 568816006401 GIY-YIG motif/motif A; other site 568816006402 putative metal binding site [ion binding]; other site 568816006403 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 568816006404 active site 568816006405 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 568816006406 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568816006407 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 568816006408 Peptidase family M23; Region: Peptidase_M23; pfam01551 568816006409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006411 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 568816006412 dimerization interface [polypeptide binding]; other site 568816006413 S-layer homology domain; Region: SLH; pfam00395 568816006414 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 568816006415 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568816006416 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568816006417 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 568816006418 transmembrane helices; other site 568816006419 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568816006420 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568816006421 stage V sporulation protein B; Region: spore_V_B; TIGR02900 568816006422 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 568816006423 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 568816006424 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 568816006425 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 568816006426 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 568816006427 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 568816006428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 568816006429 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 568816006430 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 568816006431 putative dimer interface [polypeptide binding]; other site 568816006432 KWG Leptospira; Region: KWG; pfam07656 568816006433 putative transposase OrfB; Reviewed; Region: PHA02517 568816006434 HTH-like domain; Region: HTH_21; pfam13276 568816006435 Integrase core domain; Region: rve; pfam00665 568816006436 Integrase core domain; Region: rve_2; pfam13333 568816006437 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 568816006438 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 568816006439 homodimer interface [polypeptide binding]; other site 568816006440 substrate-cofactor binding pocket; other site 568816006441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816006442 catalytic residue [active] 568816006443 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568816006444 EamA-like transporter family; Region: EamA; pfam00892 568816006445 EamA-like transporter family; Region: EamA; pfam00892 568816006446 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 568816006447 Helix-turn-helix domain; Region: HTH_17; pfam12728 568816006448 putative transposase OrfB; Reviewed; Region: PHA02517 568816006449 HTH-like domain; Region: HTH_21; pfam13276 568816006450 Integrase core domain; Region: rve; pfam00665 568816006451 Integrase core domain; Region: rve_2; pfam13333 568816006452 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 568816006453 glutaminase A; Region: Gln_ase; TIGR03814 568816006454 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816006455 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816006456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006458 LysR substrate binding domain; Region: LysR_substrate; pfam03466 568816006459 dimerization interface [polypeptide binding]; other site 568816006460 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 568816006461 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 568816006462 ligand binding site [chemical binding]; other site 568816006463 NAD binding site [chemical binding]; other site 568816006464 dimerization interface [polypeptide binding]; other site 568816006465 catalytic site [active] 568816006466 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 568816006467 putative L-serine binding site [chemical binding]; other site 568816006468 RmuC family; Region: RmuC; pfam02646 568816006469 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 568816006470 putative active site [active] 568816006471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568816006472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568816006473 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568816006474 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568816006475 HlyD family secretion protein; Region: HlyD_3; pfam13437 568816006476 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 568816006477 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 568816006478 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 568816006479 LysE type translocator; Region: LysE; cl00565 568816006480 fumarate hydratase; Reviewed; Region: fumC; PRK00485 568816006481 Class II fumarases; Region: Fumarase_classII; cd01362 568816006482 active site 568816006483 tetramer interface [polypeptide binding]; other site 568816006484 TIGR04076 family protein; Region: TIGR04076 568816006485 2-isopropylmalate synthase; Validated; Region: PRK03739 568816006486 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 568816006487 active site 568816006488 catalytic residues [active] 568816006489 metal binding site [ion binding]; metal-binding site 568816006490 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 568816006491 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568816006492 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 568816006493 substrate binding site [chemical binding]; other site 568816006494 ligand binding site [chemical binding]; other site 568816006495 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 568816006496 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 568816006497 substrate binding site [chemical binding]; other site 568816006498 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 568816006499 tartrate dehydrogenase; Region: TTC; TIGR02089 568816006500 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 568816006501 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 568816006502 GDP-binding site [chemical binding]; other site 568816006503 ACT binding site; other site 568816006504 IMP binding site; other site 568816006505 adenylosuccinate lyase; Provisional; Region: PRK07380 568816006506 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 568816006507 tetramer interface [polypeptide binding]; other site 568816006508 active site 568816006509 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 568816006510 replicative DNA helicase; Region: DnaB; TIGR00665 568816006511 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 568816006512 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 568816006513 Walker A motif; other site 568816006514 ATP binding site [chemical binding]; other site 568816006515 Walker B motif; other site 568816006516 DNA binding loops [nucleotide binding] 568816006517 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 568816006518 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 568816006519 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 568816006520 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 568816006521 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 568816006522 DHH family; Region: DHH; pfam01368 568816006523 DHHA1 domain; Region: DHHA1; pfam02272 568816006524 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 568816006525 glutamate racemase; Provisional; Region: PRK00865 568816006526 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 568816006527 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 568816006528 NAD binding site [chemical binding]; other site 568816006529 dimer interface [polypeptide binding]; other site 568816006530 substrate binding site [chemical binding]; other site 568816006531 tetramer (dimer of dimers) interface [polypeptide binding]; other site 568816006532 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 568816006533 fructuronate transporter; Provisional; Region: PRK10034; cl15264 568816006534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006536 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 568816006537 dimerization interface [polypeptide binding]; other site 568816006538 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568816006539 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 568816006540 putative metal binding site [ion binding]; other site 568816006541 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 568816006542 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 568816006543 G1 box; other site 568816006544 GTP/Mg2+ binding site [chemical binding]; other site 568816006545 G2 box; other site 568816006546 Switch I region; other site 568816006547 G3 box; other site 568816006548 Switch II region; other site 568816006549 G4 box; other site 568816006550 G5 box; other site 568816006551 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 568816006552 G4 box; other site 568816006553 GTP/Mg2+ binding site [chemical binding]; other site 568816006554 G5 box; other site 568816006555 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 568816006556 G1 box; other site 568816006557 G1 box; other site 568816006558 GTP/Mg2+ binding site [chemical binding]; other site 568816006559 G2 box; other site 568816006560 Switch I region; other site 568816006561 Switch I region; other site 568816006562 G2 box; other site 568816006563 G3 box; other site 568816006564 G3 box; other site 568816006565 Switch II region; other site 568816006566 Switch II region; other site 568816006567 G4 box; other site 568816006568 G5 box; other site 568816006569 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 568816006570 active site 568816006571 homodimer interface [polypeptide binding]; other site 568816006572 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 568816006573 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 568816006574 substrate-cofactor binding pocket; other site 568816006575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568816006576 catalytic residue [active] 568816006577 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 568816006578 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 568816006579 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 568816006580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568816006581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568816006582 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 568816006583 dimerization interface [polypeptide binding]; other site 568816006584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568816006585 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 568816006586 active site 568816006587 phosphorylation site [posttranslational modification] 568816006588 intermolecular recognition site; other site 568816006589 dimerization interface [polypeptide binding]; other site 568816006590 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 568816006591 DNA binding site [nucleotide binding] 568816006592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568816006593 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 568816006594 dimerization interface [polypeptide binding]; other site 568816006595 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 568816006596 dimer interface [polypeptide binding]; other site 568816006597 phosphorylation site [posttranslational modification] 568816006598 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 568816006599 ATP binding site [chemical binding]; other site 568816006600 Mg2+ binding site [ion binding]; other site 568816006601 G-X-G motif; other site 568816006602 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 568816006603 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 568816006604 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 568816006605 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568816006606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568816006607 NAD(P) binding site [chemical binding]; other site 568816006608 active site 568816006609 S-layer homology domain; Region: SLH; pfam00395 568816006610 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 568816006611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568816006612 Coenzyme A binding pocket [chemical binding]; other site 568816006613 Protein of unknown function (DUF554); Region: DUF554; pfam04474 568816006614 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 568816006615 ParB-like nuclease domain; Region: ParB; smart00470 568816006616 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 568816006617 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 568816006618 P-loop; other site 568816006619 Magnesium ion binding site [ion binding]; other site 568816006620 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 568816006621 Magnesium ion binding site [ion binding]; other site 568816006622 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 568816006623 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 568816006624 substrate binding site [chemical binding]; other site 568816006625 THF binding site; other site 568816006626 zinc-binding site [ion binding]; other site 568816006627 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 568816006628 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568816006629 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568816006630 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 568816006631 non-specific DNA binding site [nucleotide binding]; other site 568816006632 salt bridge; other site 568816006633 sequence-specific DNA binding site [nucleotide binding]; other site 568816006634 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 568816006635 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 568816006636 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 568816006637 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 568816006638 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 568816006639 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 568816006640 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 568816006641 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 568816006642 trmE is a tRNA modification GTPase; Region: trmE; cd04164 568816006643 G1 box; other site 568816006644 G1 box; other site 568816006645 GTP/Mg2+ binding site [chemical binding]; other site 568816006646 GTP/Mg2+ binding site [chemical binding]; other site 568816006647 Switch I region; other site 568816006648 Switch I region; other site 568816006649 G2 box; other site 568816006650 G2 box; other site 568816006651 Switch II region; other site 568816006652 G3 box; other site 568816006653 G4 box; other site 568816006654 G5 box; other site 568816006655 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 568816006656 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 568816006657 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 568816006658 G-X-X-G motif; other site 568816006659 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 568816006660 RxxxH motif; other site 568816006661 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 568816006662 ribonuclease P; Reviewed; Region: rnpA; PRK00499 568816006663 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 568816006664 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 568816006665 catalytic triad [active] 568816006666 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 568816006667 Sulfatase; Region: Sulfatase; pfam00884 568816006668 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 568816006669 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 568816006670 DNA binding residues [nucleotide binding] 568816006671 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 568816006672 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568816006673 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568816006674 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 568816006675 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 568816006676 catalytic triad [active] 568816006677 Predicted permeases [General function prediction only]; Region: COG0679 568816006678 xanthine permease; Region: pbuX; TIGR03173 568816006679 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568816006680 active site 568816006681 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 568816006682 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568816006683 potential protein location (hypothetical protein Acin_2465 [Acidaminococcus intestini RyC-MR95]) that overlaps RNA (tRNA-G)