-- dump date 20120504_163735 -- class Genbank::misc_feature -- table misc_feature_note -- id note 203275000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 203275000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 203275000003 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 203275000004 Walker A motif; other site 203275000005 ATP binding site [chemical binding]; other site 203275000006 Walker B motif; other site 203275000007 arginine finger; other site 203275000008 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 203275000009 DnaA box-binding interface [nucleotide binding]; other site 203275000010 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000011 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 203275000012 FtsX-like permease family; Region: FtsX; cl15850 203275000013 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 203275000014 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 203275000015 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 203275000016 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275000017 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 203275000018 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 203275000019 putative acyl-acceptor binding pocket; other site 203275000020 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 203275000021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000022 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 203275000023 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 203275000024 dimer interface [polypeptide binding]; other site 203275000025 active site 203275000026 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 203275000027 active site 203275000028 catalytic triad [active] 203275000029 oxyanion hole [active] 203275000030 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 203275000031 active site 203275000032 catalytic triad [active] 203275000033 oxyanion hole [active] 203275000034 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 203275000035 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275000036 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 203275000037 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 203275000038 active site 203275000039 Zn binding site [ion binding]; other site 203275000040 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 203275000041 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 203275000042 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 203275000043 intersubunit interface [polypeptide binding]; other site 203275000044 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 203275000045 ABC-ATPase subunit interface; other site 203275000046 dimer interface [polypeptide binding]; other site 203275000047 putative PBP binding regions; other site 203275000048 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 203275000049 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 203275000050 Walker A/P-loop; other site 203275000051 ATP binding site [chemical binding]; other site 203275000052 Q-loop/lid; other site 203275000053 ABC transporter signature motif; other site 203275000054 Walker B; other site 203275000055 D-loop; other site 203275000056 H-loop/switch region; other site 203275000057 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000058 Tic20-like protein; Region: Tic20; pfam09685 203275000059 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 203275000060 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 203275000061 FAD binding pocket [chemical binding]; other site 203275000062 FAD binding motif [chemical binding]; other site 203275000063 phosphate binding motif [ion binding]; other site 203275000064 beta-alpha-beta structure motif; other site 203275000065 NAD binding pocket [chemical binding]; other site 203275000066 Iron coordination center [ion binding]; other site 203275000067 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 203275000068 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 203275000069 heterodimer interface [polypeptide binding]; other site 203275000070 active site 203275000071 FMN binding site [chemical binding]; other site 203275000072 homodimer interface [polypeptide binding]; other site 203275000073 substrate binding site [chemical binding]; other site 203275000074 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 203275000075 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 203275000076 Secretory lipase; Region: LIP; pfam03583 203275000077 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 203275000078 MgtC family; Region: MgtC; pfam02308 203275000079 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 203275000080 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 203275000081 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 203275000082 dimerization interface 3.5A [polypeptide binding]; other site 203275000083 active site 203275000084 EamA-like transporter family; Region: EamA; cl01037 203275000085 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 203275000086 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 203275000087 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000088 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 203275000089 catalytic triad [active] 203275000090 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 203275000091 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 203275000092 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 203275000093 NodB motif; other site 203275000094 active site 203275000095 catalytic site [active] 203275000096 metal binding site [ion binding]; metal-binding site 203275000097 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 203275000098 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000099 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000100 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000101 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275000102 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000103 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275000104 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 203275000105 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000106 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275000107 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000108 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000109 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 203275000110 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 203275000111 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cl02713 203275000112 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 203275000113 Interdomain contacts; other site 203275000114 Cytokine receptor motif; other site 203275000115 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 203275000116 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 203275000117 active site 203275000118 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 203275000119 Stage II sporulation protein; Region: SpoIID; pfam08486 203275000120 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 203275000121 muropeptide transporter; Validated; Region: ampG; PRK11010 203275000122 AmpG-related permease; Region: 2A0125; TIGR00901 203275000123 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 203275000124 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 203275000125 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 203275000126 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 203275000127 putative active site [active] 203275000128 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 203275000129 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 203275000130 active site 203275000131 motif I; other site 203275000132 motif II; other site 203275000133 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 203275000134 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 203275000135 CoenzymeA binding site [chemical binding]; other site 203275000136 subunit interaction site [polypeptide binding]; other site 203275000137 PHB binding site; other site 203275000138 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275000139 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275000140 Active site serine [active] 203275000141 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 203275000142 active site 203275000143 zinc binding site [ion binding]; other site 203275000144 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 203275000145 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275000146 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 203275000147 quasi-rSAM protein, GG-Bacteroidales system; Region: quasi_rSAM; TIGR04150 203275000148 Transposase domain (DUF772); Region: DUF772; cl15789 203275000149 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 203275000150 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 203275000151 FeS/SAM binding site; other site 203275000152 SpaB C-terminal domain; Region: SpaB_C; cl14828 203275000153 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 203275000154 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 203275000155 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275000156 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 203275000157 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 203275000158 quasi-rSAM protein, GG-Bacteroidales system; Region: quasi_rSAM; TIGR04150 203275000159 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275000160 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 203275000161 putative active site [active] 203275000162 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275000163 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 203275000164 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 203275000165 FeS/SAM binding site; other site 203275000166 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275000167 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275000168 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275000169 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 203275000170 putative active site [active] 203275000171 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275000172 TraB family; Region: TraB; cl12050 203275000173 TraB family; Region: TraB; cl12050 203275000174 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 203275000175 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275000176 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 203275000177 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 203275000178 LytTr DNA-binding domain; Region: LytTR; cl04498 203275000179 Helix-turn-helix domains; Region: HTH; cl00088 203275000180 Winged helix-turn helix; Region: HTH_29; pfam13551 203275000181 Integrase core domain; Region: rve; cl01316 203275000182 Integrase core domain; Region: rve_3; cl15866 203275000183 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 203275000184 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 203275000185 active site 203275000186 zinc binding site [ion binding]; other site 203275000187 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275000188 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 203275000189 Domain interface; other site 203275000190 Peptide binding site; other site 203275000191 Active site tetrad [active] 203275000192 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 203275000193 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 203275000194 FeS/SAM binding site; other site 203275000195 quasi-rSAM protein, GG-Bacteroidales system; Region: quasi_rSAM; TIGR04150 203275000196 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275000197 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 203275000198 putative active site [active] 203275000199 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275000200 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275000201 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 203275000202 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 203275000203 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cd04434 203275000204 active site 203275000205 zinc binding site [ion binding]; other site 203275000206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 203275000207 TraB family; Region: TraB; cl12050 203275000208 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 203275000209 NAD(P) binding site [chemical binding]; other site 203275000210 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 203275000211 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275000212 putative active site [active] 203275000213 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275000214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000215 Walker A/P-loop; other site 203275000216 ATP binding site [chemical binding]; other site 203275000217 Q-loop/lid; other site 203275000218 ABC transporter signature motif; other site 203275000219 Walker B; other site 203275000220 D-loop; other site 203275000221 H-loop/switch region; other site 203275000222 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 203275000223 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 203275000224 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cd04434 203275000225 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 203275000226 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 203275000227 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 203275000228 active site 203275000229 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; cl01298 203275000230 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 203275000231 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 203275000232 putative dimer interface [polypeptide binding]; other site 203275000233 putative anticodon binding site; other site 203275000234 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 203275000235 homodimer interface [polypeptide binding]; other site 203275000236 motif 1; other site 203275000237 motif 2; other site 203275000238 active site 203275000239 motif 3; other site 203275000240 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 203275000241 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 203275000242 RNA binding surface [nucleotide binding]; other site 203275000243 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 203275000244 active site 203275000245 adenylosuccinate lyase; Provisional; Region: PRK09285 203275000246 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 203275000247 tetramer interface [polypeptide binding]; other site 203275000248 active site 203275000249 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 203275000250 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 203275000251 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 203275000252 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000253 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 203275000254 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 203275000255 N-terminal plug; other site 203275000256 ligand-binding site [chemical binding]; other site 203275000257 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 203275000258 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275000259 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000260 Walker A/P-loop; other site 203275000261 ATP binding site [chemical binding]; other site 203275000262 Q-loop/lid; other site 203275000263 ABC transporter signature motif; other site 203275000264 Walker B; other site 203275000265 D-loop; other site 203275000266 H-loop/switch region; other site 203275000267 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 203275000268 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275000269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000270 Walker A/P-loop; other site 203275000271 ATP binding site [chemical binding]; other site 203275000272 Q-loop/lid; other site 203275000273 ABC transporter signature motif; other site 203275000274 Walker B; other site 203275000275 D-loop; other site 203275000276 H-loop/switch region; other site 203275000277 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 203275000278 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 203275000279 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 203275000280 Glutamine amidotransferase class-I; Region: GATase; pfam00117 203275000281 glutamine binding [chemical binding]; other site 203275000282 catalytic triad [active] 203275000283 chorismate binding enzyme; Region: Chorismate_bind; cl10555 203275000284 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 203275000285 substrate-cofactor binding pocket; other site 203275000286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275000287 catalytic residue [active] 203275000288 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 203275000289 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 203275000290 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 203275000291 Major Facilitator Superfamily; Region: MFS_1; pfam07690 203275000292 putative substrate translocation pore; other site 203275000293 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 203275000294 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 203275000295 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 203275000296 4Fe-4S binding domain; Region: Fer4; cl02805 203275000297 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 203275000298 FeS/SAM binding site; other site 203275000299 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 203275000300 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 203275000301 RNA binding surface [nucleotide binding]; other site 203275000302 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 203275000303 active site 203275000304 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 203275000305 oligomerisation interface [polypeptide binding]; other site 203275000306 roof hairpin; other site 203275000307 NlpE N-terminal domain; Region: NlpE; cl01138 203275000308 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 203275000309 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 203275000310 nudix motif; other site 203275000311 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 203275000312 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 203275000313 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 203275000314 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 203275000315 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 203275000316 active site 203275000317 phosphorylation site [posttranslational modification] 203275000318 intermolecular recognition site; other site 203275000319 dimerization interface [polypeptide binding]; other site 203275000320 LytTr DNA-binding domain; Region: LytTR; cl04498 203275000321 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 203275000322 Histidine kinase; Region: His_kinase; pfam06580 203275000323 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000324 FtsX-like permease family; Region: FtsX; cl15850 203275000325 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 203275000326 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000327 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000328 FtsX-like permease family; Region: FtsX; cl15850 203275000329 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000330 FtsX-like permease family; Region: FtsX; cl15850 203275000331 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 203275000332 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 203275000333 Walker A/P-loop; other site 203275000334 ATP binding site [chemical binding]; other site 203275000335 Q-loop/lid; other site 203275000336 ABC transporter signature motif; other site 203275000337 Walker B; other site 203275000338 D-loop; other site 203275000339 H-loop/switch region; other site 203275000340 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000341 FtsX-like permease family; Region: FtsX; cl15850 203275000342 FtsX-like permease family; Region: FtsX; cl15850 203275000343 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 203275000344 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 203275000345 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 203275000346 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 203275000347 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 203275000348 Divergent AAA domain; Region: AAA_4; pfam04326 203275000349 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 203275000350 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 203275000351 active site 203275000352 phosphorylation site [posttranslational modification] 203275000353 intermolecular recognition site; other site 203275000354 dimerization interface [polypeptide binding]; other site 203275000355 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 203275000356 Walker A motif; other site 203275000357 ATP binding site [chemical binding]; other site 203275000358 Walker B motif; other site 203275000359 arginine finger; other site 203275000360 Helix-turn-helix domains; Region: HTH; cl00088 203275000361 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 203275000362 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 203275000363 ATP binding site [chemical binding]; other site 203275000364 Mg2+ binding site [ion binding]; other site 203275000365 G-X-G motif; other site 203275000366 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 203275000367 DNA binding site [nucleotide binding] 203275000368 active site 203275000369 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 203275000370 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000371 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 203275000372 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000373 Helix-turn-helix domains; Region: HTH; cl00088 203275000374 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 203275000375 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 203275000376 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275000377 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 203275000378 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 203275000379 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 203275000380 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 203275000381 AMP-binding enzyme; Region: AMP-binding; cl15778 203275000382 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 203275000383 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 203275000384 non-specific DNA binding site [nucleotide binding]; other site 203275000385 salt bridge; other site 203275000386 sequence-specific DNA binding site [nucleotide binding]; other site 203275000387 Cupin domain; Region: Cupin_2; cl09118 203275000388 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 203275000389 CoA-binding site [chemical binding]; other site 203275000390 YbbR-like protein; Region: YbbR; pfam07949 203275000391 Preprotein translocase subunit; Region: YajC; cl00806 203275000392 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 203275000393 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 203275000394 active site 203275000395 homodimer interface [polypeptide binding]; other site 203275000396 CAAX protease self-immunity; Region: Abi; cl00558 203275000397 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 203275000398 active site 203275000399 catalytic residues [active] 203275000400 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 203275000401 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000402 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275000403 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275000404 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000405 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275000406 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000407 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275000408 FecR protein; Region: FecR; pfam04773 203275000409 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275000410 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275000411 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 203275000412 DNA binding residues [nucleotide binding] 203275000413 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 203275000414 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 203275000415 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 203275000416 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 203275000417 catalytic residue [active] 203275000418 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 203275000419 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 203275000420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000421 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 203275000422 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 203275000423 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 203275000424 RNA polymerase sigma factor; Provisional; Region: PRK11924 203275000425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275000426 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 203275000427 DNA binding residues [nucleotide binding] 203275000428 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 203275000429 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 203275000430 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 203275000431 CRISPR-associated protein; Region: TIGR03986 203275000432 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 203275000433 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 203275000434 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 203275000435 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 203275000436 nucleotide binding pocket [chemical binding]; other site 203275000437 K-X-D-G motif; other site 203275000438 catalytic site [active] 203275000439 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 203275000440 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 203275000441 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 203275000442 Dimer interface [polypeptide binding]; other site 203275000443 BRCT sequence motif; other site 203275000444 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 203275000445 dihydrodipicolinate synthase; Region: dapA; TIGR00674 203275000446 dimer interface [polypeptide binding]; other site 203275000447 active site 203275000448 catalytic residue [active] 203275000449 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 203275000450 intersubunit interface [polypeptide binding]; other site 203275000451 active site 203275000452 Zn2+ binding site [ion binding]; other site 203275000453 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 203275000454 L-rhamnose isomerase; Provisional; Region: PRK01076 203275000455 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 203275000456 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 203275000457 N- and C-terminal domain interface [polypeptide binding]; other site 203275000458 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 203275000459 active site 203275000460 catalytic site [active] 203275000461 metal binding site [ion binding]; metal-binding site 203275000462 ATP binding site [chemical binding]; other site 203275000463 carbohydrate binding site [chemical binding]; other site 203275000464 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275000465 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275000466 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 203275000467 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 203275000468 prolyl-tRNA synthetase; Provisional; Region: PRK08661 203275000469 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 203275000470 dimer interface [polypeptide binding]; other site 203275000471 motif 1; other site 203275000472 active site 203275000473 motif 2; other site 203275000474 motif 3; other site 203275000475 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 203275000476 anticodon binding site; other site 203275000477 zinc-binding site [ion binding]; other site 203275000478 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 203275000479 oligomerization interface [polypeptide binding]; other site 203275000480 active site 203275000481 metal binding site [ion binding]; metal-binding site 203275000482 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275000483 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 203275000484 active site triad [active] 203275000485 LemA family; Region: LemA; cl00742 203275000486 Peptidase family M48; Region: Peptidase_M48; cl12018 203275000487 alanine--tRNA ligase; Region: alaS; TIGR00344 203275000488 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 203275000489 Phosphoglycerate kinase; Region: PGK; pfam00162 203275000490 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 203275000491 substrate binding site [chemical binding]; other site 203275000492 hinge regions; other site 203275000493 ADP binding site [chemical binding]; other site 203275000494 catalytic site [active] 203275000495 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 203275000496 MatE; Region: MatE; cl10513 203275000497 MatE; Region: MatE; cl10513 203275000498 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 203275000499 Lumazine binding domain; Region: Lum_binding; pfam00677 203275000500 Lumazine binding domain; Region: Lum_binding; pfam00677 203275000501 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 203275000502 active site 203275000503 ADP/pyrophosphate binding site [chemical binding]; other site 203275000504 dimerization interface [polypeptide binding]; other site 203275000505 allosteric effector site; other site 203275000506 fructose-1,6-bisphosphate binding site; other site 203275000507 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 203275000508 Helix-turn-helix domains; Region: HTH; cl00088 203275000509 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 203275000510 Gram-negative bacterial tonB protein; Region: TonB; cl10048 203275000511 chaperone protein DnaJ; Provisional; Region: PRK14289 203275000512 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 203275000513 HSP70 interaction site [polypeptide binding]; other site 203275000514 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 203275000515 substrate binding site [polypeptide binding]; other site 203275000516 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 203275000517 Zn binding sites [ion binding]; other site 203275000518 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 203275000519 dimer interface [polypeptide binding]; other site 203275000520 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 203275000521 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 203275000522 dimer interface [polypeptide binding]; other site 203275000523 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 203275000524 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 203275000525 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 203275000526 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 203275000527 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 203275000528 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 203275000529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000530 Walker A/P-loop; other site 203275000531 ATP binding site [chemical binding]; other site 203275000532 Q-loop/lid; other site 203275000533 ABC transporter signature motif; other site 203275000534 Walker B; other site 203275000535 D-loop; other site 203275000536 H-loop/switch region; other site 203275000537 Plant ATP synthase F0; Region: YMF19; cl07975 203275000538 Smr domain; Region: Smr; cl02619 203275000539 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275000540 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275000541 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 203275000542 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 203275000543 phosphate binding site [ion binding]; other site 203275000544 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 203275000545 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 203275000546 catalytic residue [active] 203275000547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275000548 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 203275000549 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275000550 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 203275000551 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 203275000552 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 203275000553 ATP binding site [chemical binding]; other site 203275000554 putative Mg++ binding site [ion binding]; other site 203275000555 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 203275000556 nucleotide binding region [chemical binding]; other site 203275000557 ATP-binding site [chemical binding]; other site 203275000558 TRCF domain; Region: TRCF; cl04088 203275000559 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 203275000560 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 203275000561 active site 203275000562 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 203275000563 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 203275000564 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 203275000565 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 203275000566 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 203275000567 Ligand binding site [chemical binding]; other site 203275000568 Electron transfer flavoprotein domain; Region: ETF; pfam01012 203275000569 NeuB family; Region: NeuB; cl00496 203275000570 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 203275000571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000572 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 203275000573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000574 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 203275000575 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 203275000576 YtxH-like protein; Region: YtxH; cl02079 203275000577 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 203275000578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000579 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 203275000580 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 203275000581 active site 203275000582 phosphorylation site [posttranslational modification] 203275000583 intermolecular recognition site; other site 203275000584 dimerization interface [polypeptide binding]; other site 203275000585 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 203275000586 DNA binding residues [nucleotide binding] 203275000587 dimerization interface [polypeptide binding]; other site 203275000588 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 203275000589 binding surface 203275000590 TPR motif; other site 203275000591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 203275000592 Histidine kinase; Region: HisKA_3; pfam07730 203275000593 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 203275000594 ATP binding site [chemical binding]; other site 203275000595 Mg2+ binding site [ion binding]; other site 203275000596 G-X-G motif; other site 203275000597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275000598 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275000599 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 203275000600 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 203275000601 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275000602 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275000603 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 203275000604 Protein of unknown function (DUF805); Region: DUF805; cl01224 203275000605 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275000606 RteC protein; Region: RteC; pfam09357 203275000607 LabA_like proteins; Region: LabA_like; cd06167 203275000608 putative metal binding site [ion binding]; other site 203275000609 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 203275000610 UDP-glucose 4-epimerase; Region: PLN02240 203275000611 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 203275000612 NAD binding site [chemical binding]; other site 203275000613 homodimer interface [polypeptide binding]; other site 203275000614 active site 203275000615 substrate binding site [chemical binding]; other site 203275000616 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 203275000617 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 203275000618 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 203275000619 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 203275000620 active site 203275000621 catalytic triad [active] 203275000622 oxyanion hole [active] 203275000623 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 203275000624 Uncharacterized conserved protein [Function unknown]; Region: COG3760 203275000625 putative deacylase active site [active] 203275000626 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 203275000627 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275000628 RecA-family ATPase [DNA replication, recombination, and repair]; Region: RepA; COG3598 203275000629 Helix-turn-helix domains; Region: HTH; cl00088 203275000630 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275000631 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000632 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275000633 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000634 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000635 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000636 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 203275000637 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275000638 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275000639 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275000640 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 203275000641 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 203275000642 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 203275000643 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 203275000644 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 203275000645 L-fucose isomerase; Provisional; Region: fucI; PRK10991 203275000646 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 203275000647 hexamer (dimer of trimers) interface [polypeptide binding]; other site 203275000648 trimer interface [polypeptide binding]; other site 203275000649 substrate binding site [chemical binding]; other site 203275000650 Mn binding site [ion binding]; other site 203275000651 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 203275000652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 203275000653 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275000654 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 203275000655 active site 203275000656 nucleotide binding site [chemical binding]; other site 203275000657 HIGH motif; other site 203275000658 KMSKS motif; other site 203275000659 bifunctional fucokinase/L-fucose-1-P-guanylyltransferase; Provisional; Region: fkp; PRK13412 203275000660 bifunctional fucokinase/L-fucose-1-P-guanylyltransferase; Provisional; Region: fkp; PRK13412 203275000661 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 203275000662 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 203275000663 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 203275000664 substrate binding site; other site 203275000665 tetramer interface; other site 203275000666 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 203275000667 ligand binding site [chemical binding]; other site 203275000668 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 203275000669 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 203275000670 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 203275000671 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275000672 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 203275000673 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 203275000674 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 203275000675 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 203275000676 MatE; Region: MatE; cl10513 203275000677 MatE; Region: MatE; cl10513 203275000678 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 203275000679 tetramerization interface [polypeptide binding]; other site 203275000680 active site 203275000681 Pantoate-beta-alanine ligase; Region: PanC; cd00560 203275000682 pantoate--beta-alanine ligase; Region: panC; TIGR00018 203275000683 active site 203275000684 ATP-binding site [chemical binding]; other site 203275000685 pantoate-binding site; other site 203275000686 HXXH motif; other site 203275000687 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 203275000688 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 203275000689 Fic/DOC family; Region: Fic; cl00960 203275000690 WYL domain; Region: WYL; cl14852 203275000691 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 203275000692 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 203275000693 putative active site [active] 203275000694 putative catalytic site [active] 203275000695 Helix-turn-helix domains; Region: HTH; cl00088 203275000696 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 203275000697 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000698 Gram-negative bacterial tonB protein; Region: TonB; cl10048 203275000699 serine O-acetyltransferase; Region: cysE; TIGR01172 203275000700 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 203275000701 trimer interface [polypeptide binding]; other site 203275000702 active site 203275000703 substrate binding site [chemical binding]; other site 203275000704 CoA binding site [chemical binding]; other site 203275000705 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 203275000706 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 203275000707 dimer interface [polypeptide binding]; other site 203275000708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275000709 catalytic residue [active] 203275000710 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 203275000711 NVEALA protein; Region: NVEALA; pfam14055 203275000712 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 203275000713 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 203275000714 Catalytic site [active] 203275000715 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 203275000716 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275000717 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275000718 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 203275000719 O-Antigen ligase; Region: Wzy_C; cl04850 203275000720 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 203275000721 binding surface 203275000722 TPR motif; other site 203275000723 NVEALA protein; Region: NVEALA; pfam14055 203275000724 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275000725 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275000726 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 203275000727 O-Antigen ligase; Region: Wzy_C; cl04850 203275000728 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 203275000729 Catalytic site [active] 203275000730 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 203275000731 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 203275000732 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 203275000733 active site 203275000734 Peptidase S46; Region: Peptidase_S46; pfam10459 203275000735 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 203275000736 Domain of unknown function (DUF389); Region: DUF389; cl00781 203275000737 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 203275000738 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 203275000739 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 203275000740 Walker A motif; other site 203275000741 ATP binding site [chemical binding]; other site 203275000742 Walker B motif; other site 203275000743 arginine finger; other site 203275000744 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 203275000745 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 203275000746 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 203275000747 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 203275000748 Transposase IS200 like; Region: Y1_Tnp; cl00848 203275000749 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 203275000750 Protein export membrane protein; Region: SecD_SecF; cl14618 203275000751 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275000752 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 203275000753 Protein export membrane protein; Region: SecD_SecF; cl14618 203275000754 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 203275000755 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275000756 Predicted membrane protein [Function unknown]; Region: COG2860 203275000757 UPF0126 domain; Region: UPF0126; pfam03458 203275000758 UPF0126 domain; Region: UPF0126; pfam03458 203275000759 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275000760 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275000761 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000762 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000763 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000764 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275000765 GatB domain; Region: GatB_Yqey; cl11497 203275000766 cell division protein FtsZ; Region: ftsZ; TIGR00065 203275000767 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 203275000768 nucleotide binding site [chemical binding]; other site 203275000769 SulA interaction site; other site 203275000770 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 203275000771 Cell division protein FtsA; Region: FtsA; cl11496 203275000772 Cell division protein FtsA; Region: FtsA; cl11496 203275000773 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 203275000774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 203275000775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 203275000776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 203275000777 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 203275000778 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 203275000779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 203275000780 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 203275000781 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 203275000782 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 203275000783 Mg++ binding site [ion binding]; other site 203275000784 putative catalytic motif [active] 203275000785 putative substrate binding site [chemical binding]; other site 203275000786 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 203275000787 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 203275000788 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 203275000789 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 203275000790 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 203275000791 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 203275000792 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275000793 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 203275000794 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 203275000795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000796 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275000797 putative acyl-acceptor binding pocket; other site 203275000798 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275000799 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 203275000800 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 203275000801 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 203275000802 TPP-binding site [chemical binding]; other site 203275000803 dimer interface [polypeptide binding]; other site 203275000804 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 203275000805 PYR/PP interface [polypeptide binding]; other site 203275000806 dimer interface [polypeptide binding]; other site 203275000807 TPP binding site [chemical binding]; other site 203275000808 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 203275000809 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 203275000810 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 203275000811 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 203275000812 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 203275000813 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 203275000814 motif II; other site 203275000815 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275000816 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 203275000817 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275000818 RNA polymerase sigma factor; Provisional; Region: PRK12513 203275000819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275000820 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 203275000821 DNA binding residues [nucleotide binding] 203275000822 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 203275000823 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 203275000824 substrate binding site [chemical binding]; other site 203275000825 hexamer interface [polypeptide binding]; other site 203275000826 metal binding site [ion binding]; metal-binding site 203275000827 Competence protein; Region: Competence; cl00471 203275000828 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 203275000829 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 203275000830 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275000831 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 203275000832 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 203275000833 DNA binding residues [nucleotide binding] 203275000834 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 203275000835 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 203275000836 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 203275000837 protein binding site [polypeptide binding]; other site 203275000838 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 203275000839 protein binding site [polypeptide binding]; other site 203275000840 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 203275000841 Domain of Unknown Function with PDB structure (DUF3858); Region: DUF3858; pfam12970 203275000842 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 203275000843 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 203275000844 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 203275000845 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 203275000846 GMP synthase; Reviewed; Region: guaA; PRK00074 203275000847 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 203275000848 AMP/PPi binding site [chemical binding]; other site 203275000849 candidate oxyanion hole; other site 203275000850 catalytic triad [active] 203275000851 potential glutamine specificity residues [chemical binding]; other site 203275000852 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 203275000853 ATP Binding subdomain [chemical binding]; other site 203275000854 Ligand Binding sites [chemical binding]; other site 203275000855 Dimerization subdomain; other site 203275000856 Uncharacterized conserved protein [Function unknown]; Region: COG1284 203275000857 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 203275000858 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 203275000859 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 203275000860 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275000861 Right handed beta helix region; Region: Beta_helix; pfam13229 203275000862 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275000863 Peptidase family M48; Region: Peptidase_M48; cl12018 203275000864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000865 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 203275000866 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 203275000867 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 203275000868 MatE; Region: MatE; cl10513 203275000869 MatE; Region: MatE; cl10513 203275000870 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 203275000871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275000872 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 203275000873 Domain of unknown function (DUF386); Region: DUF386; cl01047 203275000874 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 203275000875 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 203275000876 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 203275000877 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 203275000878 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 203275000879 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 203275000880 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275000881 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275000882 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275000883 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 203275000884 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 203275000885 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 203275000886 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 203275000887 FeS/SAM binding site; other site 203275000888 TRAM domain; Region: TRAM; cl01282 203275000889 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 203275000890 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 203275000891 putative active site [active] 203275000892 putative metal binding site [ion binding]; other site 203275000893 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 203275000894 PA14 domain; Region: PA14; cl08459 203275000895 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 203275000896 putative catalytic site [active] 203275000897 putative metal binding site [ion binding]; other site 203275000898 putative phosphate binding site [ion binding]; other site 203275000899 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 203275000900 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 203275000901 active site 203275000902 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 203275000903 putative active site [active] 203275000904 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 203275000905 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 203275000906 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 203275000907 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275000908 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 203275000909 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 203275000910 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 203275000911 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000912 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 203275000913 FtsX-like permease family; Region: FtsX; cl15850 203275000914 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275000915 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 203275000916 FtsX-like permease family; Region: FtsX; cl15850 203275000917 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 203275000918 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 203275000919 Walker A/P-loop; other site 203275000920 ATP binding site [chemical binding]; other site 203275000921 Q-loop/lid; other site 203275000922 ABC transporter signature motif; other site 203275000923 Walker B; other site 203275000924 D-loop; other site 203275000925 H-loop/switch region; other site 203275000926 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 203275000927 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 203275000928 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 203275000929 Ca binding site [ion binding]; other site 203275000930 active site 203275000931 homodimer interface [polypeptide binding]; other site 203275000932 catalytic site [active] 203275000933 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 203275000934 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 203275000935 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 203275000936 Transglycosylase; Region: Transgly; cl07896 203275000937 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275000938 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 203275000939 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 203275000940 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 203275000941 MG2 domain; Region: A2M_N; pfam01835 203275000942 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 203275000943 Alpha-2-macroglobulin family; Region: A2M; pfam00207 203275000944 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 203275000945 surface patch; other site 203275000946 thioester region; other site 203275000947 specificity defining residues; other site 203275000948 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 203275000949 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 203275000950 active site 203275000951 Lyase; Region: Lyase_1; pfam00206 203275000952 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 203275000953 active sites [active] 203275000954 tetramer interface [polypeptide binding]; other site 203275000955 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 203275000956 iron-sulfur cluster [ion binding]; other site 203275000957 [2Fe-2S] cluster binding site [ion binding]; other site 203275000958 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 203275000959 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275000960 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 203275000961 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 203275000962 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 203275000963 RNA/DNA hybrid binding site [nucleotide binding]; other site 203275000964 active site 203275000965 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 203275000966 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 203275000967 catalytic residues [active] 203275000968 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 203275000969 homotrimer interface [polypeptide binding]; other site 203275000970 Walker A motif; other site 203275000971 GTP binding site [chemical binding]; other site 203275000972 Walker B motif; other site 203275000973 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 203275000974 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 203275000975 active site 203275000976 HIGH motif; other site 203275000977 dimer interface [polypeptide binding]; other site 203275000978 KMSKS motif; other site 203275000979 GTP-binding protein Der; Reviewed; Region: PRK00093 203275000980 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 203275000981 G1 box; other site 203275000982 GTP/Mg2+ binding site [chemical binding]; other site 203275000983 Switch I region; other site 203275000984 G2 box; other site 203275000985 Switch II region; other site 203275000986 G3 box; other site 203275000987 G4 box; other site 203275000988 G5 box; other site 203275000989 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 203275000990 G1 box; other site 203275000991 GTP/Mg2+ binding site [chemical binding]; other site 203275000992 Switch I region; other site 203275000993 G2 box; other site 203275000994 G3 box; other site 203275000995 Switch II region; other site 203275000996 G4 box; other site 203275000997 G5 box; other site 203275000998 GTPase Era; Reviewed; Region: era; PRK00089 203275000999 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 203275001000 G1 box; other site 203275001001 GTP/Mg2+ binding site [chemical binding]; other site 203275001002 Switch I region; other site 203275001003 G2 box; other site 203275001004 Switch II region; other site 203275001005 G3 box; other site 203275001006 G4 box; other site 203275001007 G5 box; other site 203275001008 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 203275001009 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 203275001010 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 203275001011 dimer interface [polypeptide binding]; other site 203275001012 active site 203275001013 CoA binding pocket [chemical binding]; other site 203275001014 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 203275001015 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 203275001016 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 203275001017 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 203275001018 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 203275001019 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 203275001020 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275001021 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275001022 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275001023 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275001024 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001025 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001026 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275001027 FecR protein; Region: FecR; pfam04773 203275001028 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 203275001029 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275001030 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275001031 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275001032 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001033 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275001034 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001035 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 203275001036 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 203275001037 putative catalytic residues [active] 203275001038 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 203275001039 active site 203275001040 intersubunit interactions; other site 203275001041 catalytic residue [active] 203275001042 Predicted GTPase [General function prediction only]; Region: COG0218 203275001043 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 203275001044 G1 box; other site 203275001045 GTP/Mg2+ binding site [chemical binding]; other site 203275001046 Switch I region; other site 203275001047 G2 box; other site 203275001048 G3 box; other site 203275001049 Switch II region; other site 203275001050 G4 box; other site 203275001051 G5 box; other site 203275001052 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 203275001053 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 203275001054 active site 203275001055 HIGH motif; other site 203275001056 dimer interface [polypeptide binding]; other site 203275001057 KMSKS motif; other site 203275001058 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 203275001059 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 203275001060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001061 NAD(P) binding site [chemical binding]; other site 203275001062 LDH/MDH dimer interface [polypeptide binding]; other site 203275001063 substrate binding site [chemical binding]; other site 203275001064 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 203275001065 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 203275001066 TPP-binding site [chemical binding]; other site 203275001067 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 203275001068 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 203275001069 PYR/PP interface [polypeptide binding]; other site 203275001070 dimer interface [polypeptide binding]; other site 203275001071 TPP binding site [chemical binding]; other site 203275001072 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 203275001073 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 203275001074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001075 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 203275001076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001077 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 203275001078 Cation transport protein; Region: TrkH; cl10514 203275001079 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 203275001080 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 203275001081 N-terminal plug; other site 203275001082 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 203275001083 ligand-binding site [chemical binding]; other site 203275001084 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 203275001085 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 203275001086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001087 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 203275001088 Transposase domain (DUF772); Region: DUF772; cl15789 203275001089 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275001090 Transposase domain (DUF772); Region: DUF772; cl15789 203275001091 HipA N-terminal domain; Region: Couple_hipA; cl11853 203275001092 HipA-like N-terminal domain; Region: HipA_N; pfam07805 203275001093 HipA-like C-terminal domain; Region: HipA_C; pfam07804 203275001094 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 203275001095 non-specific DNA binding site [nucleotide binding]; other site 203275001096 salt bridge; other site 203275001097 sequence-specific DNA binding site [nucleotide binding]; other site 203275001098 HipA N-terminal domain; Region: Couple_hipA; cl11853 203275001099 HipA-like N-terminal domain; Region: HipA_N; pfam07805 203275001100 HipA-like C-terminal domain; Region: HipA_C; pfam07804 203275001101 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 203275001102 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 203275001103 trmE is a tRNA modification GTPase; Region: trmE; cd04164 203275001104 G1 box; other site 203275001105 GTP/Mg2+ binding site [chemical binding]; other site 203275001106 Switch I region; other site 203275001107 G2 box; other site 203275001108 Switch II region; other site 203275001109 G3 box; other site 203275001110 G4 box; other site 203275001111 G5 box; other site 203275001112 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 203275001113 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 203275001114 excinuclease ABC subunit B; Provisional; Region: PRK05298 203275001115 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 203275001116 ATP binding site [chemical binding]; other site 203275001117 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 203275001118 nucleotide binding region [chemical binding]; other site 203275001119 ATP-binding site [chemical binding]; other site 203275001120 Ultra-violet resistance protein B; Region: UvrB; pfam12344 203275001121 UvrB/uvrC motif; Region: UVR; pfam02151 203275001122 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001123 CutC family; Region: CutC; cl01218 203275001124 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 203275001125 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 203275001126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001127 O-Antigen ligase; Region: Wzy_C; cl04850 203275001128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275001129 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 203275001130 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 203275001131 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 203275001132 FeS/SAM binding site; other site 203275001133 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275001134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275001135 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 203275001136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275001137 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 203275001138 LicD family; Region: LicD; cl01378 203275001139 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 203275001140 MatE; Region: MatE; cl10513 203275001141 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 203275001142 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 203275001143 active site 203275001144 catalytic site [active] 203275001145 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 203275001146 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 203275001147 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 203275001148 SLBB domain; Region: SLBB; pfam10531 203275001149 ATP synthase subunit C; Region: ATP-synt_C; cl00466 203275001150 V-type ATP synthase subunit K; Validated; Region: PRK08344 203275001151 ATP synthase subunit C; Region: ATP-synt_C; cl00466 203275001152 V-type ATP synthase subunit I; Validated; Region: PRK05771 203275001153 pinin/SDK/memA/ protein conserved region; Region: Pinin_SDK_memA; pfam04696 203275001154 ATP synthase subunit D; Region: ATP-synt_D; cl00613 203275001155 V-type ATP synthase subunit B; Provisional; Region: PRK02118 203275001156 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 203275001157 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 203275001158 Walker A motif homologous position; other site 203275001159 Walker B motif; other site 203275001160 V-type ATP synthase subunit A; Provisional; Region: PRK04192 203275001161 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 203275001162 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 203275001163 Walker A motif/ATP binding site; other site 203275001164 Walker B motif; other site 203275001165 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 203275001166 Plant ATP synthase F0; Region: YMF19; cl07975 203275001167 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 203275001168 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 203275001169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 203275001170 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 203275001171 ATP binding site [chemical binding]; other site 203275001172 Mg2+ binding site [ion binding]; other site 203275001173 G-X-G motif; other site 203275001174 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 203275001175 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 203275001176 active site 203275001177 phosphorylation site [posttranslational modification] 203275001178 intermolecular recognition site; other site 203275001179 dimerization interface [polypeptide binding]; other site 203275001180 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 203275001181 DNA binding residues [nucleotide binding] 203275001182 dimerization interface [polypeptide binding]; other site 203275001183 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 203275001184 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 203275001185 Interdomain contacts; other site 203275001186 Cytokine receptor motif; other site 203275001187 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 203275001188 GIY-YIG motif/motif A; other site 203275001189 putative active site [active] 203275001190 putative metal binding site [ion binding]; other site 203275001191 Tannerella forsythia 147-residue repeat; Region: T_forsyth_147; TIGR02542 203275001192 Tannerella forsythia 147-residue repeat; Region: T_forsyth_147; TIGR02542 203275001193 Tannerella forsythia 147-residue repeat; Region: T_forsyth_147; TIGR02542 203275001194 Tannerella forsythia 147-residue repeat; Region: T_forsyth_147; TIGR02542 203275001195 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001196 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001197 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275001198 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275001199 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275001200 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001201 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 203275001202 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275001203 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001204 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 203275001205 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 203275001206 Short C-terminal domain; Region: SHOCT; cl01373 203275001207 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 203275001208 active site 203275001209 Haemolytic domain; Region: Haemolytic; cl00506 203275001210 Ribonuclease P; Region: Ribonuclease_P; cl00457 203275001211 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 203275001212 active site 203275001213 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 203275001214 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 203275001215 L-aspartate oxidase; Provisional; Region: PRK09077 203275001216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001217 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 203275001218 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275001219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275001220 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 203275001221 DNA binding residues [nucleotide binding] 203275001222 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275001223 FecR protein; Region: FecR; pfam04773 203275001224 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275001225 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275001226 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001227 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275001228 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001229 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275001230 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 203275001231 putative transporter; Provisional; Region: PRK11660 203275001232 Sulfate transporter family; Region: Sulfate_transp; cl15842 203275001233 Sulfate transporter family; Region: Sulfate_transp; cl15842 203275001234 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 203275001235 RF-1 domain; Region: RF-1; cl02875 203275001236 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 203275001237 RF-1 domain; Region: RF-1; cl02875 203275001238 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 203275001239 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 203275001240 HipA N-terminal domain; Region: Couple_hipA; cl11853 203275001241 HipA-like N-terminal domain; Region: HipA_N; pfam07805 203275001242 HipA-like C-terminal domain; Region: HipA_C; pfam07804 203275001243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001244 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 203275001245 homopentamer interface [polypeptide binding]; other site 203275001246 active site 203275001247 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 203275001248 TPR motif; other site 203275001249 binding surface 203275001250 recombination protein F; Reviewed; Region: recF; PRK00064 203275001251 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001252 Walker A/P-loop; other site 203275001253 ATP binding site [chemical binding]; other site 203275001254 Q-loop/lid; other site 203275001255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001256 ABC transporter signature motif; other site 203275001257 Walker B; other site 203275001258 D-loop; other site 203275001259 H-loop/switch region; other site 203275001260 Protein of unknown function (DUF721); Region: DUF721; cl02324 203275001261 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 203275001262 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275001263 C-terminal peptidase (prc); Region: prc; TIGR00225 203275001264 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 203275001265 protein binding site [polypeptide binding]; other site 203275001266 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 203275001267 Catalytic dyad [active] 203275001268 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 203275001269 catalytic motif [active] 203275001270 Zn binding site [ion binding]; other site 203275001271 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 203275001272 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 203275001273 active site 203275001274 (T/H)XGH motif; other site 203275001275 Guanylate kinase; Region: Guanylate_kin; pfam00625 203275001276 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 203275001277 catalytic site [active] 203275001278 G-X2-G-X-G-K; other site 203275001279 hypothetical protein; Provisional; Region: PRK11820 203275001280 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 203275001281 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 203275001282 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 203275001283 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 203275001284 CHC2 zinc finger; Region: zf-CHC2; cl15369 203275001285 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 203275001286 Virulence-associated protein E; Region: VirE; pfam05272 203275001287 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275001288 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275001289 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 203275001290 additional DNA contacts [nucleotide binding]; other site 203275001291 mismatch recognition site; other site 203275001292 active site 203275001293 zinc binding site [ion binding]; other site 203275001294 DNA intercalation site [nucleotide binding]; other site 203275001295 AIPR protein; Region: AIPR; pfam10592 203275001296 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 203275001297 Z1 domain; Region: Z1; pfam10593 203275001298 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 203275001299 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 203275001300 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 203275001301 cofactor binding site; other site 203275001302 DNA binding site [nucleotide binding] 203275001303 substrate interaction site [chemical binding]; other site 203275001304 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 203275001305 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 203275001306 Int/Topo IB signature motif; other site 203275001307 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 203275001308 active site 203275001309 DNA binding site [nucleotide binding] 203275001310 Int/Topo IB signature motif; other site 203275001311 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 203275001312 AMP-binding enzyme; Region: AMP-binding; cl15778 203275001313 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 203275001314 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 203275001315 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 203275001316 FeS/SAM binding site; other site 203275001317 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 203275001318 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275001319 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 203275001320 putative acyl-acceptor binding pocket; other site 203275001321 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 203275001322 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 203275001323 Probable Catalytic site; other site 203275001324 metal-binding site 203275001325 PspC domain; Region: PspC; cl00864 203275001326 Helix-turn-helix domains; Region: HTH; cl00088 203275001327 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 203275001328 ABC-ATPase subunit interface; other site 203275001329 dimer interface [polypeptide binding]; other site 203275001330 putative PBP binding regions; other site 203275001331 Restriction endonuclease; Region: Mrr_cat; cl00516 203275001332 Protein of unknown function (DUF419); Region: DUF419; cl15265 203275001333 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 203275001334 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 203275001335 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275001336 ATP synthase; Region: ATP-synt; cl00365 203275001337 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 203275001338 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 203275001339 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 203275001340 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 203275001341 beta subunit interaction interface [polypeptide binding]; other site 203275001342 Walker A motif; other site 203275001343 ATP binding site [chemical binding]; other site 203275001344 Walker B motif; other site 203275001345 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 203275001346 Plant ATP synthase F0; Region: YMF19; cl07975 203275001347 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 203275001348 Plant ATP synthase F0; Region: YMF19; cl07975 203275001349 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 203275001350 ATP synthase subunit C; Region: ATP-synt_C; cl00466 203275001351 ATP synthase A chain; Region: ATP-synt_A; cl00413 203275001352 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 203275001353 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 203275001354 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 203275001355 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 203275001356 alpha subunit interaction interface [polypeptide binding]; other site 203275001357 Walker A motif; other site 203275001358 ATP binding site [chemical binding]; other site 203275001359 Walker B motif; other site 203275001360 inhibitor binding site; inhibition site 203275001361 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 203275001362 carboxy-terminal protease; Provisional; Region: PRK11186 203275001363 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 203275001364 active site triad [active] 203275001365 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 203275001366 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 203275001367 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 203275001368 G1 box; other site 203275001369 putative GEF interaction site [polypeptide binding]; other site 203275001370 GTP/Mg2+ binding site [chemical binding]; other site 203275001371 Switch I region; other site 203275001372 G2 box; other site 203275001373 G3 box; other site 203275001374 Switch II region; other site 203275001375 G4 box; other site 203275001376 G5 box; other site 203275001377 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 203275001378 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 203275001379 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 203275001380 NADP binding site [chemical binding]; other site 203275001381 active site 203275001382 putative substrate binding site [chemical binding]; other site 203275001383 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 203275001384 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 203275001385 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 203275001386 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 203275001387 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 203275001388 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 203275001389 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 203275001390 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 203275001391 active site 203275001392 oxyanion hole [active] 203275001393 catalytic triad [active] 203275001394 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 203275001395 active site 203275001396 oxyanion hole [active] 203275001397 catalytic triad [active] 203275001398 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 203275001399 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 203275001400 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275001401 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275001402 DNA binding residues [nucleotide binding] 203275001403 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 203275001404 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 203275001405 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 203275001406 Int/Topo IB signature motif; other site 203275001407 Methyltransferase domain; Region: Methyltransf_31; pfam13847 203275001408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001410 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275001411 Virulence-associated protein E; Region: VirE; pfam05272 203275001412 DNA primase; Validated; Region: dnaG; PRK05667 203275001413 CHC2 zinc finger; Region: zf-CHC2; cl15369 203275001414 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 203275001415 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 203275001416 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 203275001417 non-specific DNA binding site [nucleotide binding]; other site 203275001418 salt bridge; other site 203275001419 sequence-specific DNA binding site [nucleotide binding]; other site 203275001420 BRO family, N-terminal domain; Region: Bro-N; cl10591 203275001421 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; cl09944 203275001422 active site 203275001423 phosphorylation site [posttranslational modification] 203275001424 intermolecular recognition site; other site 203275001425 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 203275001426 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 203275001427 hydrophobic ligand binding site; other site 203275001428 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 203275001429 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 203275001430 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 203275001431 Fibronectin type III-like domain; Region: Fn3-like; cl15273 203275001432 BNR repeat-like domain; Region: BNR_2; pfam13088 203275001433 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 203275001434 catalytic site [active] 203275001435 Asp-box motif; other site 203275001436 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 203275001437 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 203275001438 active site 203275001439 Zn binding site [ion binding]; other site 203275001440 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001441 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 203275001442 MutS domain I; Region: MutS_I; pfam01624 203275001443 MutS domain II; Region: MutS_II; pfam05188 203275001444 MutS family domain IV; Region: MutS_IV; pfam05190 203275001445 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 203275001446 Walker A/P-loop; other site 203275001447 ATP binding site [chemical binding]; other site 203275001448 Q-loop/lid; other site 203275001449 ABC transporter signature motif; other site 203275001450 Walker B; other site 203275001451 D-loop; other site 203275001452 H-loop/switch region; other site 203275001453 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 203275001454 ribonuclease R; Region: RNase_R; TIGR02063 203275001455 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 203275001456 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 203275001457 RNB domain; Region: RNB; pfam00773 203275001458 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 203275001459 RNA binding site [nucleotide binding]; other site 203275001460 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 203275001461 Sulfatase; Region: Sulfatase; cl10460 203275001462 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 203275001463 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 203275001464 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 203275001465 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 203275001466 putative FMN binding site [chemical binding]; other site 203275001467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001468 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 203275001469 Walker A/P-loop; other site 203275001470 ATP binding site [chemical binding]; other site 203275001471 Q-loop/lid; other site 203275001472 ABC transporter signature motif; other site 203275001473 Walker B; other site 203275001474 D-loop; other site 203275001475 H-loop/switch region; other site 203275001476 aspartate kinase III; Validated; Region: PRK09084 203275001477 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 203275001478 putative catalytic residues [active] 203275001479 nucleotide binding site [chemical binding]; other site 203275001480 aspartate binding site [chemical binding]; other site 203275001481 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 203275001482 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 203275001483 diaminopimelate decarboxylase; Region: lysA; TIGR01048 203275001484 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 203275001485 active site 203275001486 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 203275001487 substrate binding site [chemical binding]; other site 203275001488 catalytic residues [active] 203275001489 dimer interface [polypeptide binding]; other site 203275001490 Sporulation related domain; Region: SPOR; cl10051 203275001491 HEAT repeats; Region: HEAT_2; pfam13646 203275001492 HEAT repeats; Region: HEAT_2; pfam13646 203275001493 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 203275001494 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 203275001495 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275001496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001497 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275001498 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275001499 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001500 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001501 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001502 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275001503 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275001504 Sulfatase; Region: Sulfatase; cl10460 203275001505 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 203275001506 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001507 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275001508 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275001509 putative acyl-acceptor binding pocket; other site 203275001510 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 203275001511 AMP-binding enzyme; Region: AMP-binding; cl15778 203275001512 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 203275001513 active sites [active] 203275001514 tetramer interface [polypeptide binding]; other site 203275001515 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 203275001516 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001517 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 203275001518 DNA binding residues [nucleotide binding] 203275001519 dimerization interface [polypeptide binding]; other site 203275001520 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 203275001521 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 203275001522 CAP-like domain; other site 203275001523 active site 203275001524 primary dimer interface [polypeptide binding]; other site 203275001525 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 203275001526 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 203275001527 active site triad [active] 203275001528 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 203275001529 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 203275001530 P-loop; other site 203275001531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001532 Magnesium ion binding site [ion binding]; other site 203275001533 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 203275001534 Magnesium ion binding site [ion binding]; other site 203275001535 ParB-like nuclease domain; Region: ParBc; cl02129 203275001536 ParB-like partition proteins; Region: parB_part; TIGR00180 203275001537 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 203275001538 N-acetyl-D-glucosamine binding site [chemical binding]; other site 203275001539 catalytic residue [active] 203275001540 autolysin; Reviewed; Region: PRK06347 203275001541 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275001542 putative peptidoglycan binding site; other site 203275001543 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275001544 putative peptidoglycan binding site; other site 203275001545 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 203275001546 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 203275001547 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 203275001548 synthetase active site [active] 203275001549 NTP binding site [chemical binding]; other site 203275001550 metal binding site [ion binding]; metal-binding site 203275001551 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 203275001552 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 203275001553 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 203275001554 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 203275001555 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 203275001556 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 203275001557 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 203275001558 DNA binding residues [nucleotide binding] 203275001559 Peptidase family M23; Region: Peptidase_M23; pfam01551 203275001560 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 203275001561 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 203275001562 motif 1; other site 203275001563 active site 203275001564 motif 2; other site 203275001565 motif 3; other site 203275001566 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 203275001567 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 203275001568 active site 203275001569 dimer interface [polypeptide binding]; other site 203275001570 metal binding site [ion binding]; metal-binding site 203275001571 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275001572 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275001573 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 203275001574 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 203275001575 Sulfatase; Region: Sulfatase; cl10460 203275001576 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275001577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001578 urocanate hydratase; Provisional; Region: PRK05414 203275001579 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 203275001580 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 203275001581 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275001582 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 203275001583 binding surface 203275001584 TPR motif; other site 203275001585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 203275001586 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 203275001587 glutamate formiminotransferase; Region: FtcD; TIGR02024 203275001588 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 203275001589 Formiminotransferase domain; Region: FTCD; pfam02971 203275001590 imidazolonepropionase; Validated; Region: PRK09356 203275001591 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 203275001592 active site 203275001593 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 203275001594 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 203275001595 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 203275001596 active sites [active] 203275001597 tetramer interface [polypeptide binding]; other site 203275001598 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 203275001599 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001600 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 203275001601 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 203275001602 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 203275001603 active site 203275001604 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 203275001605 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 203275001606 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 203275001607 catalytic core [active] 203275001608 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 203275001609 hypothetical protein; Provisional; Region: PRK04164 203275001610 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 203275001611 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 203275001612 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 203275001613 Walker A/P-loop; other site 203275001614 ATP binding site [chemical binding]; other site 203275001615 Q-loop/lid; other site 203275001616 ABC transporter signature motif; other site 203275001617 Walker B; other site 203275001618 D-loop; other site 203275001619 H-loop/switch region; other site 203275001620 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 203275001621 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 203275001622 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 203275001623 active site 203275001624 catalytic residues [active] 203275001625 Quinolinate synthetase A protein; Region: NadA; cl00420 203275001626 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 203275001627 Helix-turn-helix domains; Region: HTH; cl00088 203275001628 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 203275001629 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 203275001630 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275001631 TPR motif; other site 203275001632 binding surface 203275001633 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 203275001634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001635 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 203275001636 active site 203275001637 Hef nuclease; Provisional; Region: PRK13766 203275001638 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 203275001639 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 203275001640 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 203275001641 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 203275001642 Sulfatase; Region: Sulfatase; cl10460 203275001643 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 203275001644 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 203275001645 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 203275001646 catalytic residue [active] 203275001647 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 203275001648 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 203275001649 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 203275001650 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 203275001651 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 203275001652 FeS/SAM binding site; other site 203275001653 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 203275001654 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 203275001655 Protein export membrane protein; Region: SecD_SecF; cl14618 203275001656 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 203275001657 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 203275001658 Walker A/P-loop; other site 203275001659 ATP binding site [chemical binding]; other site 203275001660 Q-loop/lid; other site 203275001661 ABC transporter signature motif; other site 203275001662 Walker B; other site 203275001663 D-loop; other site 203275001664 H-loop/switch region; other site 203275001665 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 203275001666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 203275001667 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 203275001668 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275001669 ABC-2 type transporter; Region: ABC2_membrane; cl11417 203275001670 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 203275001671 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 203275001672 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 203275001673 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 203275001674 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 203275001675 Walker A/P-loop; other site 203275001676 ATP binding site [chemical binding]; other site 203275001677 Q-loop/lid; other site 203275001678 ABC transporter signature motif; other site 203275001679 Walker B; other site 203275001680 D-loop; other site 203275001681 H-loop/switch region; other site 203275001682 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 203275001683 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 203275001684 1,4-alpha-glucan-branching enzyme; Region: PLN02447 203275001685 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 203275001686 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 203275001687 active site 203275001688 catalytic site [active] 203275001689 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 203275001690 2-isopropylmalate synthase; Validated; Region: PRK00915 203275001691 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 203275001692 active site 203275001693 catalytic residues [active] 203275001694 metal binding site [ion binding]; metal-binding site 203275001695 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 203275001696 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 203275001697 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 203275001698 substrate binding site [chemical binding]; other site 203275001699 ligand binding site [chemical binding]; other site 203275001700 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 203275001701 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 203275001702 substrate binding site [chemical binding]; other site 203275001703 (R)-citramalate synthase; Provisional; Region: PRK09389 203275001704 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 203275001705 active site 203275001706 catalytic residues [active] 203275001707 metal binding site [ion binding]; metal-binding site 203275001708 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 203275001709 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 203275001710 tartrate dehydrogenase; Provisional; Region: PRK08194 203275001711 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 203275001712 Surface antigen; Region: Bac_surface_Ag; cl03097 203275001713 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 203275001714 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 203275001715 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275001716 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 203275001717 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001718 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001719 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001720 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001721 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275001722 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275001723 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001724 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 203275001725 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 203275001726 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 203275001727 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 203275001728 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 203275001729 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 203275001730 substrate binding pocket [chemical binding]; other site 203275001731 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 203275001732 B12 binding site [chemical binding]; other site 203275001733 cobalt ligand [ion binding]; other site 203275001734 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 203275001735 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 203275001736 Peptidase family U32; Region: Peptidase_U32; cl03113 203275001737 Collagenase; Region: DUF3656; pfam12392 203275001738 Homoserine O-succinyltransferase; Region: HTS; pfam04204 203275001739 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 203275001740 proposed active site lysine [active] 203275001741 conserved cys residue [active] 203275001742 competence damage-inducible protein A; Provisional; Region: PRK00549 203275001743 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 203275001744 putative MPT binding site; other site 203275001745 Competence-damaged protein; Region: CinA; cl00666 203275001746 UGMP family protein; Validated; Region: PRK09604 203275001747 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 203275001748 AsmA family; Region: AsmA; pfam05170 203275001749 Family of unknown function (DUF490); Region: DUF490; pfam04357 203275001750 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275001751 Flavin Reductases; Region: FlaRed; cl00801 203275001752 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 203275001753 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 203275001754 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 203275001755 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 203275001756 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 203275001757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001758 Rhomboid family; Region: Rhomboid; cl11446 203275001759 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 203275001760 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 203275001761 FeS/SAM binding site; other site 203275001762 quasi-rSAM protein, GG-Bacteroidales system; Region: quasi_rSAM; TIGR04150 203275001763 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 203275001764 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275001765 putative active site [active] 203275001766 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275001767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001768 Walker A/P-loop; other site 203275001769 ATP binding site [chemical binding]; other site 203275001770 Q-loop/lid; other site 203275001771 ABC transporter signature motif; other site 203275001772 Walker B; other site 203275001773 D-loop; other site 203275001774 H-loop/switch region; other site 203275001775 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 203275001776 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 203275001777 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cd04434 203275001778 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 203275001779 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 203275001780 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275001781 FtsX-like permease family; Region: FtsX; cl15850 203275001782 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275001783 FtsX-like permease family; Region: FtsX; cl15850 203275001784 Transposase domain (DUF772); Region: DUF772; cl15789 203275001785 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 203275001786 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275001787 GH3 auxin-responsive promoter; Region: GH3; cl04006 203275001788 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275001789 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275001790 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 203275001791 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001792 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 203275001793 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 203275001794 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 203275001795 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275001796 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275001797 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275001798 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 203275001799 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275001800 FecR protein; Region: FecR; pfam04773 203275001801 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001802 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275001803 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 203275001804 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001805 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 203275001806 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 203275001807 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 203275001808 ATP binding site [chemical binding]; other site 203275001809 Mg2+ binding site [ion binding]; other site 203275001810 G-X-G motif; other site 203275001811 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 203275001812 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 203275001813 active site 203275001814 phosphorylation site [posttranslational modification] 203275001815 intermolecular recognition site; other site 203275001816 dimerization interface [polypeptide binding]; other site 203275001817 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 203275001818 DNA binding site [nucleotide binding] 203275001819 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 203275001820 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 203275001821 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 203275001822 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 203275001823 catalytic core [active] 203275001824 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 203275001825 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 203275001826 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 203275001827 active site pocket [active] 203275001828 putative dimer interface [polypeptide binding]; other site 203275001829 putative cataytic base [active] 203275001830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 203275001831 Helix-turn-helix domains; Region: HTH; cl00088 203275001832 hypothetical protein; Provisional; Region: PRK14851 203275001833 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 203275001834 dimer interface [polypeptide binding]; other site 203275001835 NAD-dependent deacetylase; Provisional; Region: PRK00481 203275001836 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 203275001837 NAD+ binding site [chemical binding]; other site 203275001838 substrate binding site [chemical binding]; other site 203275001839 Zn binding site [ion binding]; other site 203275001840 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275001841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275001842 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 203275001843 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 203275001844 UbiA prenyltransferase family; Region: UbiA; cl00337 203275001845 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 203275001846 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275001847 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275001848 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 203275001849 DNA binding residues [nucleotide binding] 203275001850 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 203275001851 Response regulator receiver domain; Region: Response_reg; pfam00072 203275001852 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 203275001853 active site 203275001854 phosphorylation site [posttranslational modification] 203275001855 intermolecular recognition site; other site 203275001856 dimerization interface [polypeptide binding]; other site 203275001857 PglZ domain; Region: PglZ; pfam08665 203275001858 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 203275001859 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 203275001860 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 203275001861 inhibitor-cofactor binding pocket; inhibition site 203275001862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275001863 catalytic residue [active] 203275001864 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 203275001865 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 203275001866 active site 203275001867 HIGH motif; other site 203275001868 KMSKS motif; other site 203275001869 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 203275001870 tRNA binding surface [nucleotide binding]; other site 203275001871 anticodon binding site; other site 203275001872 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 203275001873 dimer interface [polypeptide binding]; other site 203275001874 putative tRNA-binding site [nucleotide binding]; other site 203275001875 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 203275001876 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 203275001877 ATP binding site [chemical binding]; other site 203275001878 Mg++ binding site [ion binding]; other site 203275001879 motif III; other site 203275001880 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 203275001881 nucleotide binding region [chemical binding]; other site 203275001882 ATP-binding site [chemical binding]; other site 203275001883 DbpA RNA binding domain; Region: DbpA; pfam03880 203275001884 Virulence protein [General function prediction only]; Region: COG3943 203275001885 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 203275001886 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 203275001887 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275001888 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 203275001889 TPR motif; other site 203275001890 binding surface 203275001891 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 203275001892 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 203275001893 hinge; other site 203275001894 active site 203275001895 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 203275001896 active site 203275001897 substrate-binding site [chemical binding]; other site 203275001898 metal-binding site [ion binding] 203275001899 ATP binding site [chemical binding]; other site 203275001900 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 203275001901 A new structural DNA glycosylase; Region: AlkD_like; cd06561 203275001902 active site 203275001903 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 203275001904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275001905 Nucleoside recognition; Region: Gate; cl00486 203275001906 Nucleoside recognition; Region: Gate; cl00486 203275001907 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 203275001908 aminoacyl-tRNA ligase; Region: PLN02563 203275001909 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275001910 active site 203275001911 HIGH motif; other site 203275001912 nucleotide binding site [chemical binding]; other site 203275001913 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275001914 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 203275001915 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275001916 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275001917 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275001918 active site 203275001919 KMSKS motif; other site 203275001920 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 203275001921 tRNA binding surface [nucleotide binding]; other site 203275001922 Uncharacterized conserved protein [Function unknown]; Region: COG1284 203275001923 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 203275001924 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 203275001925 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 203275001926 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 203275001927 active site 203275001928 dimerization interface [polypeptide binding]; other site 203275001929 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 203275001930 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001931 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 203275001932 S-adenosylmethionine binding site [chemical binding]; other site 203275001933 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 203275001934 AMP-binding enzyme; Region: AMP-binding; cl15778 203275001935 LysE type translocator; Region: LysE; cl00565 203275001936 LytB protein; Region: LYTB; cl00507 203275001937 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 203275001938 cytidylate kinase; Provisional; Region: cmk; PRK00023 203275001939 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 203275001940 CMP-binding site; other site 203275001941 The sites determining sugar specificity; other site 203275001942 Gram-negative bacterial tonB protein; Region: TonB; cl10048 203275001943 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 203275001944 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 203275001945 substrate binding pocket [chemical binding]; other site 203275001946 chain length determination region; other site 203275001947 substrate-Mg2+ binding site; other site 203275001948 catalytic residues [active] 203275001949 aspartate-rich region 1; other site 203275001950 active site lid residues [active] 203275001951 aspartate-rich region 2; other site 203275001952 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 203275001953 active site 203275001954 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 203275001955 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 203275001956 Helix-turn-helix domains; Region: HTH; cl00088 203275001957 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 203275001958 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 203275001959 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 203275001960 carboxyltransferase (CT) interaction site; other site 203275001961 biotinylation site [posttranslational modification]; other site 203275001962 Lamin Tail Domain; Region: LTD; pfam00932 203275001963 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 203275001964 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 203275001965 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 203275001966 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 203275001967 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 203275001968 dimer interface [polypeptide binding]; other site 203275001969 substrate binding site [chemical binding]; other site 203275001970 metal binding site [ion binding]; metal-binding site 203275001971 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 203275001972 putative nucleotide binding site [chemical binding]; other site 203275001973 uridine monophosphate binding site [chemical binding]; other site 203275001974 homohexameric interface [polypeptide binding]; other site 203275001975 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275001976 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 203275001977 DNA binding residues [nucleotide binding] 203275001978 FecR protein; Region: FecR; pfam04773 203275001979 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275001980 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275001981 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275001982 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275001983 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275001984 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275001985 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275001986 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 203275001987 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 203275001988 1,4-alpha-glucan-branching enzyme; Region: PLN02447 203275001989 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 203275001990 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 203275001991 active site 203275001992 catalytic site [active] 203275001993 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 203275001994 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275001995 Leucine rich repeat; Region: LRR_8; pfam13855 203275001996 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275001997 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275001998 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275001999 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002000 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275002001 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002002 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002003 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275002004 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; cl00207 203275002005 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 203275002006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002007 CoA-ligase; Region: Ligase_CoA; cl02894 203275002008 ATP-grasp domain; Region: ATP-grasp_4; cl03087 203275002009 exonuclease subunit SbcD; Provisional; Region: PRK10966 203275002010 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 203275002011 active site 203275002012 metal binding site [ion binding]; metal-binding site 203275002013 DNA binding site [nucleotide binding] 203275002014 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 203275002015 exonuclease subunit SbcC; Provisional; Region: PRK10246 203275002016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002017 Walker A/P-loop; other site 203275002018 ATP binding site [chemical binding]; other site 203275002019 Q-loop/lid; other site 203275002020 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 203275002021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002022 Q-loop/lid; other site 203275002023 ABC transporter signature motif; other site 203275002024 Walker B; other site 203275002025 D-loop; other site 203275002026 H-loop/switch region; other site 203275002027 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 203275002028 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 203275002029 membrane ATPase/protein kinase; Provisional; Region: PRK09435 203275002030 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 203275002031 Walker A; other site 203275002032 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 203275002033 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 203275002034 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 203275002035 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 203275002036 folate binding site [chemical binding]; other site 203275002037 NADP+ binding site [chemical binding]; other site 203275002038 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 203275002039 dimerization interface [polypeptide binding]; other site 203275002040 active site 203275002041 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 203275002042 uracil transporter; Provisional; Region: PRK10720 203275002043 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 203275002044 active site 203275002045 DNA polymerase I; Provisional; Region: PRK05755 203275002046 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 203275002047 active site 203275002048 metal binding site 1 [ion binding]; metal-binding site 203275002049 putative 5' ssDNA interaction site; other site 203275002050 metal binding site 3; metal-binding site 203275002051 metal binding site 2 [ion binding]; metal-binding site 203275002052 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 203275002053 putative DNA binding site [nucleotide binding]; other site 203275002054 putative metal binding site [ion binding]; other site 203275002055 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 203275002056 active site 203275002057 catalytic site [active] 203275002058 substrate binding site [chemical binding]; other site 203275002059 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 203275002060 active site 203275002061 DNA binding site [nucleotide binding] 203275002062 catalytic site [active] 203275002063 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 203275002064 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 203275002065 substrate binding pocket [chemical binding]; other site 203275002066 chain length determination region; other site 203275002067 substrate-Mg2+ binding site; other site 203275002068 catalytic residues [active] 203275002069 aspartate-rich region 1; other site 203275002070 active site lid residues [active] 203275002071 aspartate-rich region 2; other site 203275002072 VanZ like family; Region: VanZ; cl01971 203275002073 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275002074 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 203275002075 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 203275002076 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 203275002077 NodB motif; other site 203275002078 active site 203275002079 catalytic site [active] 203275002080 metal binding site [ion binding]; metal-binding site 203275002081 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 203275002082 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 203275002083 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275002084 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 203275002085 THUMP domain; Region: THUMP; cl12076 203275002086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002087 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 203275002088 NlpC/P60 family; Region: NLPC_P60; cl11438 203275002089 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 203275002090 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 203275002091 active site 203275002092 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 203275002093 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 203275002094 FeS/SAM binding site; other site 203275002095 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 203275002096 NVEALA protein; Region: NVEALA; pfam14055 203275002097 NVEALA protein; Region: NVEALA; pfam14055 203275002098 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 203275002099 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002100 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002101 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002102 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002103 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002104 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002105 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 203275002106 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 203275002107 ATP cone domain; Region: ATP-cone; pfam03477 203275002108 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 203275002109 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 203275002110 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 203275002111 nucleotide binding site/active site [active] 203275002112 HIT family signature motif; other site 203275002113 catalytic residue [active] 203275002114 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 203275002115 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 203275002116 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 203275002117 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 203275002118 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 203275002119 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 203275002120 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 203275002121 putative active site [active] 203275002122 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 203275002123 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 203275002124 putative substrate binding site [chemical binding]; other site 203275002125 putative ATP binding site [chemical binding]; other site 203275002126 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 203275002127 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 203275002128 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 203275002129 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002130 Walker A/P-loop; other site 203275002131 ATP binding site [chemical binding]; other site 203275002132 Q-loop/lid; other site 203275002133 ABC transporter signature motif; other site 203275002134 Walker B; other site 203275002135 D-loop; other site 203275002136 H-loop/switch region; other site 203275002137 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 203275002138 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 203275002139 metal binding site [ion binding]; metal-binding site 203275002140 dimer interface [polypeptide binding]; other site 203275002141 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 203275002142 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 203275002143 RNase E interface [polypeptide binding]; other site 203275002144 trimer interface [polypeptide binding]; other site 203275002145 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 203275002146 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 203275002147 RNase E interface [polypeptide binding]; other site 203275002148 trimer interface [polypeptide binding]; other site 203275002149 active site 203275002150 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 203275002151 putative nucleic acid binding region [nucleotide binding]; other site 203275002152 G-X-X-G motif; other site 203275002153 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 203275002154 RNA binding site [nucleotide binding]; other site 203275002155 domain interface; other site 203275002156 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 203275002157 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 203275002158 metal-binding site 203275002159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275002160 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 203275002161 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 203275002162 putative trimer interface [polypeptide binding]; other site 203275002163 putative CoA binding site [chemical binding]; other site 203275002164 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275002165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275002166 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 203275002167 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 203275002168 active site 203275002169 homodimer interface [polypeptide binding]; other site 203275002170 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 203275002171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002172 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 203275002173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002174 Fic family protein [Function unknown]; Region: COG3177 203275002175 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 203275002176 Fic/DOC family; Region: Fic; cl00960 203275002177 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 203275002178 Divergent AAA domain; Region: AAA_4; pfam04326 203275002179 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 203275002180 Helix-turn-helix domains; Region: HTH; cl00088 203275002181 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 203275002182 active site 203275002183 dimer interface [polypeptide binding]; other site 203275002184 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 203275002185 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 203275002186 Ligand Binding Site [chemical binding]; other site 203275002187 Molecular Tunnel; other site 203275002188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275002189 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 203275002190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002191 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 203275002192 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 203275002193 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 203275002194 S-adenosylmethionine binding site [chemical binding]; other site 203275002195 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 203275002196 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 203275002197 ligand binding site; other site 203275002198 tetramer interface; other site 203275002199 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 203275002200 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 203275002201 Substrate binding site; other site 203275002202 metal-binding site 203275002203 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 203275002204 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 203275002205 active site 203275002206 homodimer interface [polypeptide binding]; other site 203275002207 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 203275002208 NeuB family; Region: NeuB; cl00496 203275002209 SAF domain; Region: SAF; cl00555 203275002210 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 203275002211 putative CoA binding site [chemical binding]; other site 203275002212 putative trimer interface [polypeptide binding]; other site 203275002213 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 203275002214 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u2_5s; cd10971 203275002215 putative active site [active] 203275002216 putative metal binding site [ion binding]; other site 203275002217 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 203275002218 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 203275002219 dimer interface [polypeptide binding]; other site 203275002220 active site 203275002221 CoA binding pocket [chemical binding]; other site 203275002222 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 203275002223 classical (c) SDRs; Region: SDR_c; cd05233 203275002224 NAD(P) binding site [chemical binding]; other site 203275002225 active site 203275002226 Phosphopantetheine attachment site; Region: PP-binding; cl09936 203275002227 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 203275002228 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 203275002229 inhibitor-cofactor binding pocket; inhibition site 203275002230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275002231 catalytic residue [active] 203275002232 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 203275002233 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 203275002234 NAD binding site [chemical binding]; other site 203275002235 substrate binding site [chemical binding]; other site 203275002236 active site 203275002237 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 203275002238 MatE; Region: MatE; cl10513 203275002239 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275002240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002241 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 203275002242 Predicted permeases [General function prediction only]; Region: COG0701 203275002243 Predicted permease; Region: DUF318; pfam03773 203275002244 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 203275002245 metal-binding site [ion binding] 203275002246 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275002247 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 203275002248 protein binding site [polypeptide binding]; other site 203275002249 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 203275002250 Catalytic dyad [active] 203275002251 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 203275002252 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 203275002253 active site 203275002254 (T/H)XGH motif; other site 203275002255 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 203275002256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 203275002257 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 203275002258 ATP binding site [chemical binding]; other site 203275002259 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 203275002260 active site 203275002261 putative metal-binding site [ion binding]; other site 203275002262 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 203275002263 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 203275002264 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275002265 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 203275002266 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 203275002267 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 203275002268 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 203275002269 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 203275002270 putative active site [active] 203275002271 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 203275002272 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 203275002273 active site 203275002274 substrate binding site [chemical binding]; other site 203275002275 cosubstrate binding site; other site 203275002276 catalytic site [active] 203275002277 Phosphopantetheine attachment site; Region: PP-binding; cl09936 203275002278 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 203275002279 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 203275002280 dimer interface [polypeptide binding]; other site 203275002281 active site 203275002282 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 203275002283 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 203275002284 dimerization interface [polypeptide binding]; other site 203275002285 active site 203275002286 metal binding site [ion binding]; metal-binding site 203275002287 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 203275002288 dsRNA binding site [nucleotide binding]; other site 203275002289 Protein of unknown function (DUF419); Region: DUF419; cl15265 203275002290 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 203275002291 active site 203275002292 ADP/pyrophosphate binding site [chemical binding]; other site 203275002293 dimerization interface [polypeptide binding]; other site 203275002294 allosteric effector site; other site 203275002295 fructose-1,6-bisphosphate binding site; other site 203275002296 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 203275002297 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 203275002298 active site 203275002299 metal binding site [ion binding]; metal-binding site 203275002300 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 203275002301 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002302 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002303 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 203275002304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002305 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 203275002306 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 203275002307 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 203275002308 GIY-YIG motif/motif A; other site 203275002309 active site 203275002310 catalytic site [active] 203275002311 putative DNA binding site [nucleotide binding]; other site 203275002312 metal binding site [ion binding]; metal-binding site 203275002313 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 203275002314 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 203275002315 putative active site [active] 203275002316 dimerization interface [polypeptide binding]; other site 203275002317 putative tRNAtyr binding site [nucleotide binding]; other site 203275002318 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275002319 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 203275002320 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275002321 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 203275002322 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 203275002323 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 203275002324 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 203275002325 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 203275002326 lipoyl attachment site [posttranslational modification]; other site 203275002327 AIR carboxylase; Region: AIRC; cl00310 203275002328 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 203275002329 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 203275002330 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275002331 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 203275002332 PLD-like domain; Region: PLDc_2; pfam13091 203275002333 putative active site [active] 203275002334 catalytic site [active] 203275002335 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 203275002336 putative active site [active] 203275002337 catalytic site [active] 203275002338 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 203275002339 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 203275002340 active site 203275002341 putative DNA-binding cleft [nucleotide binding]; other site 203275002342 dimer interface [polypeptide binding]; other site 203275002343 glutamate dehydrogenase; Provisional; Region: PRK14030 203275002344 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 203275002345 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 203275002346 NAD(P) binding site [chemical binding]; other site 203275002347 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; cl09944 203275002348 active site 203275002349 phosphorylation site [posttranslational modification] 203275002350 intermolecular recognition site; other site 203275002351 dimerization interface [polypeptide binding]; other site 203275002352 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 203275002353 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 203275002354 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275002355 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 203275002356 binding surface 203275002357 TPR motif; other site 203275002358 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 203275002359 binding surface 203275002360 TPR motif; other site 203275002361 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 203275002362 binding surface 203275002363 TPR motif; other site 203275002364 Tetratricopeptide repeat; Region: TPR_6; pfam13174 203275002365 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 203275002366 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 203275002367 Adenosylhomocysteinase; Provisional; Region: PTZ00075 203275002368 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 203275002369 oligomerization interface [polypeptide binding]; other site 203275002370 active site 203275002371 NAD+ binding site [chemical binding]; other site 203275002372 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 203275002373 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 203275002374 dimer interface [polypeptide binding]; other site 203275002375 active site 203275002376 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 203275002377 active site 203275002378 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 203275002379 RDD family; Region: RDD; cl00746 203275002380 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 203275002381 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 203275002382 FMN binding site [chemical binding]; other site 203275002383 active site 203275002384 catalytic residues [active] 203275002385 substrate binding site [chemical binding]; other site 203275002386 Lamin Tail Domain; Region: LTD; pfam00932 203275002387 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 203275002388 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 203275002389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002390 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 203275002391 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 203275002392 active site residue [active] 203275002393 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002394 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002395 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275002396 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275002397 Helix-turn-helix domains; Region: HTH; cl00088 203275002398 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 203275002399 active site residue [active] 203275002400 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 203275002401 Sulfatase; Region: Sulfatase; cl10460 203275002402 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 203275002403 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 203275002404 intersubunit interface [polypeptide binding]; other site 203275002405 active site 203275002406 catalytic residue [active] 203275002407 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 203275002408 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 203275002409 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 203275002410 active site 203275002411 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 203275002412 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 203275002413 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 203275002414 PhoU domain; Region: PhoU; pfam01895 203275002415 Glucuronate isomerase; Region: UxaC; cl00829 203275002416 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 203275002417 active site 203275002418 ADP/pyrophosphate binding site [chemical binding]; other site 203275002419 dimerization interface [polypeptide binding]; other site 203275002420 allosteric effector site; other site 203275002421 fructose-1,6-bisphosphate binding site; other site 203275002422 Transposase domain (DUF772); Region: DUF772; cl15789 203275002423 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275002424 Transposase domain (DUF772); Region: DUF772; cl15789 203275002425 Integral membrane protein DUF95; Region: DUF95; cl00572 203275002426 Domain of unknown function (DUF4203); Region: DUF4203; pfam13886 203275002427 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 203275002428 MoxR-like ATPases [General function prediction only]; Region: COG0714 203275002429 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 203275002430 Walker A motif; other site 203275002431 ATP binding site [chemical binding]; other site 203275002432 Walker B motif; other site 203275002433 arginine finger; other site 203275002434 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 203275002435 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 203275002436 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 203275002437 active site 203275002438 Zn binding site [ion binding]; other site 203275002439 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275002440 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275002441 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 203275002442 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275002443 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 203275002444 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 203275002445 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 203275002446 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 203275002447 MarC family integral membrane protein; Region: MarC; cl00919 203275002448 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 203275002449 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 203275002450 ATP-grasp domain; Region: ATP-grasp_4; cl03087 203275002451 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 203275002452 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 203275002453 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275002454 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 203275002455 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275002456 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002457 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002458 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002459 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002460 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275002461 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 203275002462 Predicted peptidase [General function prediction only]; Region: COG4099 203275002463 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275002464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 203275002465 Putative glucoamylase; Region: Glycoamylase; pfam10091 203275002466 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002467 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002468 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002469 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002470 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002471 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002472 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002473 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002474 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 203275002475 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275002476 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 203275002477 DNA binding residues [nucleotide binding] 203275002478 dimerization interface [polypeptide binding]; other site 203275002479 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 203275002480 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 203275002481 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275002482 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 203275002483 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 203275002484 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 203275002485 glycyl-tRNA synthetase; Provisional; Region: PRK04173 203275002486 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 203275002487 motif 1; other site 203275002488 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 203275002489 active site 203275002490 motif 2; other site 203275002491 motif 3; other site 203275002492 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 203275002493 anticodon binding site; other site 203275002494 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 203275002495 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 203275002496 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 203275002497 putative ligand binding site [chemical binding]; other site 203275002498 fumarate hydratase; Provisional; Region: PRK15389 203275002499 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 203275002500 Fumarase C-terminus; Region: Fumerase_C; cl00795 203275002501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 203275002502 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 203275002503 active site 203275002504 phosphorylation site [posttranslational modification] 203275002505 intermolecular recognition site; other site 203275002506 dimerization interface [polypeptide binding]; other site 203275002507 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 203275002508 DNA binding site [nucleotide binding] 203275002509 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 203275002510 dimer interface [polypeptide binding]; other site 203275002511 phosphorylation site [posttranslational modification] 203275002512 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 203275002513 ATP binding site [chemical binding]; other site 203275002514 Mg2+ binding site [ion binding]; other site 203275002515 G-X-G motif; other site 203275002516 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 203275002517 Int/Topo IB signature motif; other site 203275002518 Virulence protein [General function prediction only]; Region: COG3943 203275002519 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275002520 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275002521 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275002522 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 203275002523 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 203275002524 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 203275002525 DNA topoisomerase III; Provisional; Region: PRK07726 203275002526 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 203275002527 active site 203275002528 putative interdomain interaction site [polypeptide binding]; other site 203275002529 putative metal-binding site [ion binding]; other site 203275002530 putative nucleotide binding site [chemical binding]; other site 203275002531 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 203275002532 domain I; other site 203275002533 DNA binding groove [nucleotide binding] 203275002534 phosphate binding site [ion binding]; other site 203275002535 domain II; other site 203275002536 domain III; other site 203275002537 nucleotide binding site [chemical binding]; other site 203275002538 catalytic site [active] 203275002539 domain IV; other site 203275002540 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 203275002541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002542 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 203275002543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002544 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002546 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 203275002547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275002548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 203275002549 Coenzyme A binding pocket [chemical binding]; other site 203275002550 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 203275002551 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 203275002552 G1 box; other site 203275002553 putative GEF interaction site [polypeptide binding]; other site 203275002554 GTP/Mg2+ binding site [chemical binding]; other site 203275002555 Switch I region; other site 203275002556 G2 box; other site 203275002557 G3 box; other site 203275002558 Switch II region; other site 203275002559 G4 box; other site 203275002560 G5 box; other site 203275002561 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 203275002562 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 203275002563 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 203275002564 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 203275002565 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 203275002566 dimer interface [polypeptide binding]; other site 203275002567 phosphorylation site [posttranslational modification] 203275002568 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 203275002569 ATP binding site [chemical binding]; other site 203275002570 Mg2+ binding site [ion binding]; other site 203275002571 G-X-G motif; other site 203275002572 Response regulator receiver domain; Region: Response_reg; pfam00072 203275002573 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 203275002574 active site 203275002575 phosphorylation site [posttranslational modification] 203275002576 intermolecular recognition site; other site 203275002577 dimerization interface [polypeptide binding]; other site 203275002578 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 203275002579 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 203275002580 active site 203275002581 phosphorylation site [posttranslational modification] 203275002582 intermolecular recognition site; other site 203275002583 dimerization interface [polypeptide binding]; other site 203275002584 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 203275002585 Walker A motif; other site 203275002586 ATP binding site [chemical binding]; other site 203275002587 Walker B motif; other site 203275002588 arginine finger; other site 203275002589 Helix-turn-helix domains; Region: HTH; cl00088 203275002590 aspartate kinase; Provisional; Region: PRK06291 203275002591 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 203275002592 Divergent AAA domain; Region: AAA_4; pfam04326 203275002593 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 203275002594 YWFCY protein; Region: YWFCY; pfam14293 203275002595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002596 AAA-like domain; Region: AAA_10; pfam12846 203275002597 Walker A motif; other site 203275002598 ATP binding site [chemical binding]; other site 203275002599 Walker B motif; other site 203275002600 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 203275002601 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 203275002602 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 203275002603 P-loop; other site 203275002604 Magnesium ion binding site [ion binding]; other site 203275002605 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 203275002606 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 203275002607 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 203275002608 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 203275002609 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 203275002610 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 203275002611 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 203275002612 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 203275002613 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 203275002614 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 203275002615 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 203275002616 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 203275002617 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 203275002618 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 203275002619 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 203275002620 Conjugative transposon protein TraO; Region: TraO; pfam10626 203275002621 CHC2 zinc finger; Region: zf-CHC2; cl15369 203275002622 DNA primase; Validated; Region: dnaG; PRK05667 203275002623 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 203275002624 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 203275002625 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 203275002626 Domain of unknown function, B. Theta Gene description (DUF3873); Region: DUF3873; pfam12989 203275002627 PcfJ-like protein; Region: PcfJ; pfam14284 203275002628 PcfK-like protein; Region: PcfK; pfam14058 203275002629 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 203275002630 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 203275002631 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 203275002632 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 203275002633 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275002634 putative active site [active] 203275002635 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275002636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002637 Walker A/P-loop; other site 203275002638 ATP binding site [chemical binding]; other site 203275002639 Q-loop/lid; other site 203275002640 ABC transporter signature motif; other site 203275002641 Walker B; other site 203275002642 D-loop; other site 203275002643 H-loop/switch region; other site 203275002644 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275002645 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 203275002646 active site 203275002647 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002648 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002649 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275002650 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275002651 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002652 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275002653 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275002654 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275002655 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 203275002656 TPR motif; other site 203275002657 binding surface 203275002658 TPR repeat; Region: TPR_11; pfam13414 203275002659 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 203275002660 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 203275002661 ligand binding site [chemical binding]; other site 203275002662 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 203275002663 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 203275002664 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 203275002665 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 203275002666 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 203275002667 dimer interface [polypeptide binding]; other site 203275002668 phosphorylation site [posttranslational modification] 203275002669 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 203275002670 ATP binding site [chemical binding]; other site 203275002671 Mg2+ binding site [ion binding]; other site 203275002672 G-X-G motif; other site 203275002673 Response regulator receiver domain; Region: Response_reg; pfam00072 203275002674 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 203275002675 active site 203275002676 phosphorylation site [posttranslational modification] 203275002677 intermolecular recognition site; other site 203275002678 dimerization interface [polypeptide binding]; other site 203275002679 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 203275002680 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275002681 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 203275002682 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 203275002683 active site 203275002684 HIGH motif; other site 203275002685 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 203275002686 KMSKS motif; other site 203275002687 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 203275002688 tRNA binding surface [nucleotide binding]; other site 203275002689 anticodon binding site; other site 203275002690 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 203275002691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002692 NAD(P) binding site [chemical binding]; other site 203275002693 active site 203275002694 Phosphopantetheine attachment site; Region: PP-binding; cl09936 203275002695 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 203275002696 putative acyl-acceptor binding pocket; other site 203275002697 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 203275002698 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 203275002699 active site 2 [active] 203275002700 active site 1 [active] 203275002701 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 203275002702 active site 203275002703 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 203275002704 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 203275002705 dimer interface [polypeptide binding]; other site 203275002706 active site 203275002707 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 203275002708 active site 203275002709 Phosphopantetheine attachment site; Region: PP-binding; cl09936 203275002710 baseplate wedge subunit and tail pin; Provisional; Region: 10; PHA02582 203275002711 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 203275002712 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 203275002713 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 203275002714 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 203275002715 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 203275002716 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 203275002717 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 203275002718 GldM N-terminal domain; Region: GldM_N; pfam12081 203275002719 GldM C-terminal domain; Region: GldM_C; pfam12080 203275002720 gliding motility associated protien GldN; Region: GldN; TIGR03523 203275002721 WbqC-like protein family; Region: WbqC; pfam08889 203275002722 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 203275002723 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 203275002724 Catalytic site [active] 203275002725 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 203275002726 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 203275002727 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 203275002728 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 203275002729 Catalytic site [active] 203275002730 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 203275002731 signal peptidase I; Provisional; Region: PRK10861 203275002732 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 203275002733 dihydrodipicolinate reductase; Provisional; Region: PRK00048 203275002734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002735 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 203275002736 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 203275002737 Bacterial Ig-like domain; Region: Big_5; cl01012 203275002738 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002739 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 203275002740 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 203275002741 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 203275002742 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 203275002743 catalytic residues [active] 203275002744 dimer interface [polypeptide binding]; other site 203275002745 ribosome recycling factor; Reviewed; Region: frr; PRK00083 203275002746 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 203275002747 hinge region; other site 203275002748 GTPase RsgA; Reviewed; Region: PRK00098 203275002749 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 203275002750 RNA binding site [nucleotide binding]; other site 203275002751 homodimer interface [polypeptide binding]; other site 203275002752 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 203275002753 GTPase/Zn-binding domain interface [polypeptide binding]; other site 203275002754 GTP/Mg2+ binding site [chemical binding]; other site 203275002755 G4 box; other site 203275002756 G5 box; other site 203275002757 G1 box; other site 203275002758 Switch I region; other site 203275002759 G2 box; other site 203275002760 G3 box; other site 203275002761 Switch II region; other site 203275002762 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 203275002763 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 203275002764 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 203275002765 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002766 Acetokinase family; Region: Acetate_kinase; cl01029 203275002767 propionate/acetate kinase; Provisional; Region: PRK12379 203275002768 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 203275002769 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 203275002770 Uncharacterized conserved protein [Function unknown]; Region: COG1624 203275002771 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 203275002772 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 203275002773 dihydropteroate synthase; Region: DHPS; TIGR01496 203275002774 substrate binding pocket [chemical binding]; other site 203275002775 dimer interface [polypeptide binding]; other site 203275002776 inhibitor binding site; inhibition site 203275002777 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 203275002778 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 203275002779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 203275002780 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 203275002781 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 203275002782 active site 203275002783 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 203275002784 Peptidase family U32; Region: Peptidase_U32; cl03113 203275002785 Mechanosensitive ion channel; Region: MS_channel; pfam00924 203275002786 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 203275002787 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 203275002788 Abi-like protein; Region: Abi_2; cl01988 203275002789 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275002790 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 203275002791 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 203275002792 Glutamate binding site [chemical binding]; other site 203275002793 NAD binding site [chemical binding]; other site 203275002794 catalytic residues [active] 203275002795 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 203275002796 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 203275002797 binding surface 203275002798 Tetratricopeptide repeat; Region: TPR_16; pfam13432 203275002799 TPR motif; other site 203275002800 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002801 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 203275002802 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 203275002803 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 203275002804 active site 203275002805 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 203275002806 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 203275002807 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 203275002808 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 203275002809 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 203275002810 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 203275002811 trimer interface [polypeptide binding]; other site 203275002812 active site 203275002813 UDP-GlcNAc binding site [chemical binding]; other site 203275002814 lipid binding site [chemical binding]; lipid-binding site 203275002815 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 203275002816 active site 203275002817 dimer interface [polypeptide binding]; other site 203275002818 peptide chain release factor 1; Validated; Region: prfA; PRK00591 203275002819 RF-1 domain; Region: RF-1; cl02875 203275002820 RF-1 domain; Region: RF-1; cl02875 203275002821 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 203275002822 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 203275002823 dimerization interface [polypeptide binding]; other site 203275002824 ATP binding site [chemical binding]; other site 203275002825 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 203275002826 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 203275002827 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 203275002828 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 203275002829 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275002830 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 203275002831 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 203275002832 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 203275002833 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 203275002834 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 203275002835 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 203275002836 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275002837 beta-D-glucuronidase; Provisional; Region: PRK10150 203275002838 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275002839 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275002840 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 203275002841 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275002842 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002843 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 203275002844 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002845 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002846 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 203275002847 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 203275002848 active site 203275002849 metal binding site [ion binding]; metal-binding site 203275002850 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 203275002851 active site 203275002852 metal binding site [ion binding]; metal-binding site 203275002853 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 203275002854 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 203275002855 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 203275002856 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 203275002857 active site 203275002858 Int/Topo IB signature motif; other site 203275002859 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 203275002860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002861 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 203275002862 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 203275002863 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 203275002864 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 203275002865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002866 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 203275002867 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 203275002868 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 203275002869 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 203275002870 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275002871 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275002872 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002873 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002874 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002875 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002876 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275002877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275002878 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 203275002879 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275002880 FecR protein; Region: FecR; pfam04773 203275002881 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 203275002882 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 203275002883 Ligand binding site; other site 203275002884 Putative Catalytic site; other site 203275002885 DXD motif; other site 203275002886 GtrA-like protein; Region: GtrA; cl00971 203275002887 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 203275002888 active site 203275002889 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 203275002890 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275002891 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002892 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002893 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002894 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002895 Lipid-binding putative hydrolase; Region: Lipid_bd; pfam12888 203275002896 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275002897 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275002898 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002899 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002900 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002901 GTP-binding protein YchF; Reviewed; Region: PRK09601 203275002902 YchF GTPase; Region: YchF; cd01900 203275002903 G1 box; other site 203275002904 GTP/Mg2+ binding site [chemical binding]; other site 203275002905 Switch I region; other site 203275002906 G2 box; other site 203275002907 Switch II region; other site 203275002908 G3 box; other site 203275002909 G4 box; other site 203275002910 G5 box; other site 203275002911 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 203275002912 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 203275002913 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 203275002914 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 203275002915 active site 203275002916 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002917 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002918 Radical SAM superfamily; Region: Radical_SAM; pfam04055 203275002919 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 203275002920 FeS/SAM binding site; other site 203275002921 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275002922 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275002923 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275002924 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 203275002925 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275002926 putative active site [active] 203275002927 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275002928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275002929 Walker A/P-loop; other site 203275002930 ATP binding site [chemical binding]; other site 203275002931 Q-loop/lid; other site 203275002932 ABC transporter signature motif; other site 203275002933 Walker B; other site 203275002934 D-loop; other site 203275002935 H-loop/switch region; other site 203275002936 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 203275002937 putative active site [active] 203275002938 putative metal binding site [ion binding]; other site 203275002939 Domain of unknown function DUF59; Region: DUF59; cl00941 203275002940 hypothetical protein; Reviewed; Region: PRK00024 203275002941 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 203275002942 MPN+ (JAMM) motif; other site 203275002943 Zinc-binding site [ion binding]; other site 203275002944 elongation factor P; Validated; Region: PRK00529 203275002945 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 203275002946 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 203275002947 RNA binding site [nucleotide binding]; other site 203275002948 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 203275002949 RNA binding site [nucleotide binding]; other site 203275002950 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 203275002951 putative active site [active] 203275002952 putative metal binding residues [ion binding]; other site 203275002953 signature motif; other site 203275002954 putative dimer interface [polypeptide binding]; other site 203275002955 putative phosphate binding site [ion binding]; other site 203275002956 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 203275002957 Smr domain; Region: Smr; cl02619 203275002958 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 203275002959 oligomerisation interface [polypeptide binding]; other site 203275002960 mobile loop; other site 203275002961 roof hairpin; other site 203275002962 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 203275002963 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 203275002964 ring oligomerisation interface [polypeptide binding]; other site 203275002965 ATP/Mg binding site [chemical binding]; other site 203275002966 stacking interactions; other site 203275002967 hinge regions; other site 203275002968 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 203275002969 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 203275002970 active site 203275002971 RecX family; Region: RecX; cl00936 203275002972 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 203275002973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275002974 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 203275002975 S-adenosylmethionine binding site [chemical binding]; other site 203275002976 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 203275002977 catalytic motif [active] 203275002978 Zn binding site [ion binding]; other site 203275002979 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 203275002980 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 203275002981 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 203275002982 catalytic residue [active] 203275002983 putative FPP diphosphate binding site; other site 203275002984 putative FPP binding hydrophobic cleft; other site 203275002985 dimer interface [polypeptide binding]; other site 203275002986 putative IPP diphosphate binding site; other site 203275002987 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 203275002988 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 203275002989 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 203275002990 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 203275002991 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 203275002992 Surface antigen; Region: Bac_surface_Ag; cl03097 203275002993 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 203275002994 periplasmic chaperone; Provisional; Region: PRK10780 203275002995 periplasmic chaperone; Provisional; Region: PRK10780 203275002996 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 203275002997 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 203275002998 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 203275002999 hypothetical protein; Provisional; Region: PRK11770 203275003000 Domain of unknown function (DUF307); Region: DUF307; pfam03733 203275003001 Domain of unknown function (DUF307); Region: DUF307; pfam03733 203275003002 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 203275003003 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 203275003004 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 203275003005 FtsX-like permease family; Region: FtsX; cl15850 203275003006 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 203275003007 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 203275003008 putative metal binding residues [ion binding]; other site 203275003009 Ribosome-binding factor A; Region: RBFA; cl00542 203275003010 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 203275003011 putative catalytic site [active] 203275003012 putative metal binding site [ion binding]; other site 203275003013 putative phosphate binding site [ion binding]; other site 203275003014 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275003015 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275003016 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275003017 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003018 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275003019 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275003020 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003021 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275003022 FecR protein; Region: FecR; pfam04773 203275003023 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275003024 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275003025 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 203275003026 DNA binding residues [nucleotide binding] 203275003027 O-methyltransferase; Region: Methyltransf_3; pfam01596 203275003028 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 203275003029 S-adenosylmethionine binding site [chemical binding]; other site 203275003030 pyruvate kinase; Provisional; Region: PRK05826 203275003031 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 203275003032 domain interfaces; other site 203275003033 active site 203275003034 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 203275003035 trimer interface [polypeptide binding]; other site 203275003036 active site 203275003037 dimer interface [polypeptide binding]; other site 203275003038 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275003039 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 203275003040 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 203275003041 FeS/SAM binding site; other site 203275003042 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275003043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003044 GAF domain; Region: GAF; cl15785 203275003045 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 203275003046 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 203275003047 active site 203275003048 NTP binding site [chemical binding]; other site 203275003049 metal binding triad [ion binding]; metal-binding site 203275003050 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 203275003051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 203275003052 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 203275003053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 203275003054 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 203275003055 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 203275003056 synthetase active site [active] 203275003057 NTP binding site [chemical binding]; other site 203275003058 metal binding site [ion binding]; metal-binding site 203275003059 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 203275003060 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 203275003061 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 203275003062 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 203275003063 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 203275003064 motif II; other site 203275003065 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275003066 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275003067 Peptidase C10 family; Region: Peptidase_C10; pfam01640 203275003068 UL49 family; Region: Herpes_UL49_1; pfam03117 203275003069 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 203275003070 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 203275003071 NifU-like domain; Region: NifU; cl00484 203275003072 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 203275003073 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 203275003074 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 203275003075 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 203275003076 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 203275003077 active site 203275003078 NAD binding site [chemical binding]; other site 203275003079 metal binding site [ion binding]; metal-binding site 203275003080 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 203275003081 putative catalytic cysteine [active] 203275003082 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 203275003083 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 203275003084 FAD binding site [chemical binding]; other site 203275003085 homotetramer interface [polypeptide binding]; other site 203275003086 substrate binding pocket [chemical binding]; other site 203275003087 catalytic base [active] 203275003088 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 203275003089 Ligand binding site [chemical binding]; other site 203275003090 Electron transfer flavoprotein domain; Region: ETF; pfam01012 203275003091 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 203275003092 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 203275003093 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 203275003094 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 203275003095 CoenzymeA binding site [chemical binding]; other site 203275003096 subunit interaction site [polypeptide binding]; other site 203275003097 PHB binding site; other site 203275003098 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 203275003099 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 203275003100 Walker A/P-loop; other site 203275003101 ATP binding site [chemical binding]; other site 203275003102 Q-loop/lid; other site 203275003103 ABC transporter signature motif; other site 203275003104 Walker B; other site 203275003105 D-loop; other site 203275003106 H-loop/switch region; other site 203275003107 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 203275003108 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 203275003109 ATP binding site [chemical binding]; other site 203275003110 Mg2+ binding site [ion binding]; other site 203275003111 G-X-G motif; other site 203275003112 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 203275003113 ATP binding site [chemical binding]; other site 203275003114 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 203275003115 OstA-like protein; Region: OstA_2; pfam13100 203275003116 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 203275003117 PPIC-type PPIASE domain; Region: Rotamase; cl08278 203275003118 PPIC-type PPIASE domain; Region: Rotamase; cl08278 203275003119 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 203275003120 PPIC-type PPIASE domain; Region: Rotamase; cl08278 203275003121 PPIC-type PPIASE domain; Region: Rotamase; cl08278 203275003122 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 203275003123 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 203275003124 ATP binding site [chemical binding]; other site 203275003125 putative Mg++ binding site [ion binding]; other site 203275003126 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 203275003127 nucleotide binding region [chemical binding]; other site 203275003128 ATP-binding site [chemical binding]; other site 203275003129 RQC domain; Region: RQC; cl09632 203275003130 HRDC domain; Region: HRDC; cl02578 203275003131 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 203275003132 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 203275003133 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 203275003134 Walker A motif; other site 203275003135 ATP binding site [chemical binding]; other site 203275003136 Walker B motif; other site 203275003137 arginine finger; other site 203275003138 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 203275003139 Clp protease; Region: CLP_protease; pfam00574 203275003140 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 203275003141 oligomer interface [polypeptide binding]; other site 203275003142 active site residues [active] 203275003143 trigger factor; Region: tig; TIGR00115 203275003144 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 203275003145 RNA/DNA binding site [nucleotide binding]; other site 203275003146 RRM dimerization site [polypeptide binding]; other site 203275003147 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275003148 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275003149 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 203275003150 DNA binding residues [nucleotide binding] 203275003151 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 203275003152 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 203275003153 N-terminal plug; other site 203275003154 ligand-binding site [chemical binding]; other site 203275003155 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 203275003156 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 203275003157 generic binding surface II; other site 203275003158 ssDNA binding site; other site 203275003159 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 203275003160 ATP binding site [chemical binding]; other site 203275003161 putative Mg++ binding site [ion binding]; other site 203275003162 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 203275003163 nucleotide binding region [chemical binding]; other site 203275003164 ATP-binding site [chemical binding]; other site 203275003165 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 203275003166 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 203275003167 TPR repeat; Region: TPR_11; pfam13414 203275003168 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 203275003169 binding surface 203275003170 TPR motif; other site 203275003171 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 203275003172 binding surface 203275003173 TPR motif; other site 203275003174 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 203275003175 binding surface 203275003176 TPR motif; other site 203275003177 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275003178 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 203275003179 binding surface 203275003180 TPR motif; other site 203275003181 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275003182 TPR repeat; Region: TPR_11; pfam13414 203275003183 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 203275003184 binding surface 203275003185 TPR motif; other site 203275003186 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 203275003187 trimer interface [polypeptide binding]; other site 203275003188 active site 203275003189 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 203275003190 dimer interface [polypeptide binding]; other site 203275003191 FMN binding site [chemical binding]; other site 203275003192 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 203275003193 dimer interface [polypeptide binding]; other site 203275003194 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 203275003195 putative catalytic site [active] 203275003196 putative metal binding site [ion binding]; other site 203275003197 putative phosphate binding site [ion binding]; other site 203275003198 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 203275003199 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275003200 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275003201 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275003202 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003203 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275003204 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003205 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275003206 FecR protein; Region: FecR; pfam04773 203275003207 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275003208 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275003209 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 203275003210 DNA binding residues [nucleotide binding] 203275003211 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 203275003212 Substrate binding site; other site 203275003213 metal-binding site 203275003214 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 203275003215 Phosphotransferase enzyme family; Region: APH; pfam01636 203275003216 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 203275003217 Peptidase family M49; Region: Peptidase_M49; pfam03571 203275003218 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 203275003219 metal binding site 2 [ion binding]; metal-binding site 203275003220 putative DNA binding helix; other site 203275003221 metal binding site 1 [ion binding]; metal-binding site 203275003222 dimer interface [polypeptide binding]; other site 203275003223 structural Zn2+ binding site [ion binding]; other site 203275003224 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 203275003225 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 203275003226 GDP-binding site [chemical binding]; other site 203275003227 ACT binding site; other site 203275003228 IMP binding site; other site 203275003229 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 203275003230 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 203275003231 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 203275003232 dimer interface [polypeptide binding]; other site 203275003233 motif 1; other site 203275003234 active site 203275003235 motif 2; other site 203275003236 motif 3; other site 203275003237 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 203275003238 anticodon binding site; other site 203275003239 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 203275003240 active site 203275003241 catalytic triad [active] 203275003242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 203275003243 Transposase; Region: DDE_Tnp_ISL3; pfam01610 203275003244 DNA topoisomerase III; Provisional; Region: PRK07726 203275003245 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 203275003246 active site 203275003247 putative interdomain interaction site [polypeptide binding]; other site 203275003248 putative metal-binding site [ion binding]; other site 203275003249 putative nucleotide binding site [chemical binding]; other site 203275003250 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 203275003251 domain I; other site 203275003252 DNA binding groove [nucleotide binding] 203275003253 phosphate binding site [ion binding]; other site 203275003254 domain II; other site 203275003255 domain III; other site 203275003256 nucleotide binding site [chemical binding]; other site 203275003257 catalytic site [active] 203275003258 domain IV; other site 203275003259 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 203275003260 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275003261 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 203275003262 DNA binding residues [nucleotide binding] 203275003263 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 203275003264 active site 203275003265 catalytic motif [active] 203275003266 Zn binding site [ion binding]; other site 203275003267 S-adenosylmethionine synthetase; Validated; Region: PRK05250 203275003268 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 203275003269 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 203275003270 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 203275003271 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 203275003272 S17 interaction site [polypeptide binding]; other site 203275003273 S8 interaction site; other site 203275003274 16S rRNA interaction site [nucleotide binding]; other site 203275003275 streptomycin interaction site [chemical binding]; other site 203275003276 23S rRNA interaction site [nucleotide binding]; other site 203275003277 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 203275003278 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 203275003279 elongation factor G; Reviewed; Region: PRK12739 203275003280 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 203275003281 G1 box; other site 203275003282 putative GEF interaction site [polypeptide binding]; other site 203275003283 GTP/Mg2+ binding site [chemical binding]; other site 203275003284 Switch I region; other site 203275003285 G2 box; other site 203275003286 G3 box; other site 203275003287 Switch II region; other site 203275003288 G4 box; other site 203275003289 G5 box; other site 203275003290 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 203275003291 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 203275003292 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 203275003293 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 203275003294 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 203275003295 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 203275003296 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 203275003297 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 203275003298 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 203275003299 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 203275003300 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 203275003301 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 203275003302 putative translocon binding site; other site 203275003303 protein-rRNA interface [nucleotide binding]; other site 203275003304 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 203275003305 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 203275003306 G-X-X-G motif; other site 203275003307 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 203275003308 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 203275003309 23S rRNA interface [nucleotide binding]; other site 203275003310 5S rRNA interface [nucleotide binding]; other site 203275003311 putative antibiotic binding site [chemical binding]; other site 203275003312 L25 interface [polypeptide binding]; other site 203275003313 L27 interface [polypeptide binding]; other site 203275003314 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 203275003315 23S rRNA interface [nucleotide binding]; other site 203275003316 putative translocon interaction site; other site 203275003317 signal recognition particle (SRP54) interaction site; other site 203275003318 L23 interface [polypeptide binding]; other site 203275003319 trigger factor interaction site; other site 203275003320 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 203275003321 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 203275003322 KOW motif; Region: KOW; cl00354 203275003323 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 203275003324 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 203275003325 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 203275003326 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 203275003327 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 203275003328 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 203275003329 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 203275003330 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 203275003331 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 203275003332 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 203275003333 23S rRNA interface [nucleotide binding]; other site 203275003334 L21e interface [polypeptide binding]; other site 203275003335 5S rRNA interface [nucleotide binding]; other site 203275003336 L27 interface [polypeptide binding]; other site 203275003337 L5 interface [polypeptide binding]; other site 203275003338 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 203275003339 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 203275003340 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 203275003341 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 203275003342 23S rRNA binding site [nucleotide binding]; other site 203275003343 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 203275003344 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 203275003345 SecY translocase; Region: SecY; pfam00344 203275003346 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 203275003347 active site 203275003348 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 203275003349 rRNA binding site [nucleotide binding]; other site 203275003350 predicted 30S ribosome binding site; other site 203275003351 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 203275003352 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 203275003353 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 203275003354 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 203275003355 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 203275003356 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 203275003357 RNA binding surface [nucleotide binding]; other site 203275003358 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 203275003359 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 203275003360 alphaNTD - beta interaction site [polypeptide binding]; other site 203275003361 alphaNTD homodimer interface [polypeptide binding]; other site 203275003362 alphaNTD - beta' interaction site [polypeptide binding]; other site 203275003363 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 203275003364 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 203275003365 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 203275003366 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 203275003367 Walker A/P-loop; other site 203275003368 ATP binding site [chemical binding]; other site 203275003369 Q-loop/lid; other site 203275003370 ABC transporter signature motif; other site 203275003371 Walker B; other site 203275003372 D-loop; other site 203275003373 H-loop/switch region; other site 203275003374 Permease; Region: Permease; cl00510 203275003375 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275003376 AAA domain; Region: AAA_33; pfam13671 203275003377 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 203275003378 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 203275003379 FeS/SAM binding site; other site 203275003380 HemN C-terminal domain; Region: HemN_C; pfam06969 203275003381 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 203275003382 elongation factor G; Reviewed; Region: PRK12740 203275003383 G1 box; other site 203275003384 putative GEF interaction site [polypeptide binding]; other site 203275003385 GTP/Mg2+ binding site [chemical binding]; other site 203275003386 Switch I region; other site 203275003387 G2 box; other site 203275003388 G3 box; other site 203275003389 Switch II region; other site 203275003390 G4 box; other site 203275003391 G5 box; other site 203275003392 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 203275003393 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 203275003394 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 203275003395 Transposase domain (DUF772); Region: DUF772; cl15789 203275003396 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275003397 Transposase domain (DUF772); Region: DUF772; cl15789 203275003398 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275003399 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 203275003400 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275003401 L-type amino acid transporter; Region: 2A0308; TIGR00911 203275003402 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003403 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003404 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 203275003405 nucleophile elbow; other site 203275003406 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 203275003407 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 203275003408 active site 203275003409 catalytic site [active] 203275003410 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 203275003411 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 203275003412 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 203275003413 active site 203275003414 Cupin domain; Region: Cupin_2; cl09118 203275003415 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 203275003416 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 203275003417 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 203275003418 Helix-turn-helix domains; Region: HTH; cl00088 203275003419 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 203275003420 Protein export membrane protein; Region: SecD_SecF; cl14618 203275003421 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003422 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 203275003423 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003424 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 203275003425 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 203275003426 Peptidase family C69; Region: Peptidase_C69; pfam03577 203275003427 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 203275003428 FMN binding site [chemical binding]; other site 203275003429 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 203275003430 dimer interface [polypeptide binding]; other site 203275003431 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 203275003432 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 203275003433 Phospholipid methyltransferase; Region: PEMT; cl00763 203275003434 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003435 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 203275003436 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 203275003437 N-terminal plug; other site 203275003438 ligand-binding site [chemical binding]; other site 203275003439 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 203275003440 ZIP Zinc transporter; Region: Zip; pfam02535 203275003441 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 203275003442 hydrophobic ligand binding site; other site 203275003443 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 203275003444 S-adenosylmethionine binding site [chemical binding]; other site 203275003445 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 203275003446 S-adenosylmethionine binding site [chemical binding]; other site 203275003447 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 203275003448 S-adenosylmethionine binding site [chemical binding]; other site 203275003449 KilA-N domain; Region: KilA-N; pfam04383 203275003450 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 203275003451 S-adenosylmethionine binding site [chemical binding]; other site 203275003452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003453 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 203275003454 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 203275003455 active site 203275003456 metal binding site [ion binding]; metal-binding site 203275003457 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 203275003458 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275003459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275003460 Walker A/P-loop; other site 203275003461 ATP binding site [chemical binding]; other site 203275003462 Q-loop/lid; other site 203275003463 ABC transporter signature motif; other site 203275003464 Walker B; other site 203275003465 D-loop; other site 203275003466 H-loop/switch region; other site 203275003467 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 203275003468 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275003469 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 203275003470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275003471 Walker A/P-loop; other site 203275003472 ATP binding site [chemical binding]; other site 203275003473 Q-loop/lid; other site 203275003474 ABC transporter signature motif; other site 203275003475 Walker B; other site 203275003476 D-loop; other site 203275003477 H-loop/switch region; other site 203275003478 Glutaminase; Region: Glutaminase; cl00907 203275003479 kinesin-12 family protein; Provisional; Region: PLN03188 203275003480 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 203275003481 Cation efflux family; Region: Cation_efflux; cl00316 203275003482 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 203275003483 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 203275003484 active site 203275003485 Riboflavin kinase; Region: Flavokinase; cl03312 203275003486 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 203275003487 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 203275003488 metal binding site [ion binding]; metal-binding site 203275003489 dimer interface [polypeptide binding]; other site 203275003490 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 203275003491 Thiamine pyrophosphokinase; Region: TPK; cd07995 203275003492 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 203275003493 active site 203275003494 dimerization interface [polypeptide binding]; other site 203275003495 thiamine binding site [chemical binding]; other site 203275003496 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 203275003497 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 203275003498 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 203275003499 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275003500 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275003501 anaerobic sulfatase-maturase; Provisional; Region: PRK13745 203275003502 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 203275003503 FeS/SAM binding site; other site 203275003504 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275003505 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 203275003506 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 203275003507 putative Iron-sulfur protein interface [polypeptide binding]; other site 203275003508 proximal heme binding site [chemical binding]; other site 203275003509 distal heme binding site [chemical binding]; other site 203275003510 putative dimer interface [polypeptide binding]; other site 203275003511 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 203275003512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003513 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 203275003514 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 203275003515 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; cl00159 203275003516 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 203275003517 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 203275003518 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 203275003519 KMSK motif region; other site 203275003520 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 203275003521 tRNA binding surface [nucleotide binding]; other site 203275003522 anticodon binding site; other site 203275003523 DNA topoisomerase I; Provisional; Region: PRK08780 203275003524 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 203275003525 active site 203275003526 interdomain interaction site; other site 203275003527 putative metal-binding site [ion binding]; other site 203275003528 nucleotide binding site [chemical binding]; other site 203275003529 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 203275003530 domain I; other site 203275003531 DNA binding groove [nucleotide binding] 203275003532 phosphate binding site [ion binding]; other site 203275003533 domain II; other site 203275003534 domain III; other site 203275003535 nucleotide binding site [chemical binding]; other site 203275003536 catalytic site [active] 203275003537 domain IV; other site 203275003538 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 203275003539 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 203275003540 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 203275003541 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275003542 active site 203275003543 HIGH motif; other site 203275003544 nucleotide binding site [chemical binding]; other site 203275003545 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 203275003546 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 203275003547 active site 203275003548 KMSKS motif; other site 203275003549 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 203275003550 tRNA binding surface [nucleotide binding]; other site 203275003551 anticodon binding site; other site 203275003552 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 203275003553 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275003554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 203275003555 Transposase; Region: DDE_Tnp_ISL3; pfam01610 203275003556 radical SAM protein, TIGR01212 family; Region: TIGR01212 203275003557 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 203275003558 FeS/SAM binding site; other site 203275003559 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 203275003560 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 203275003561 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275003562 lipoyl synthase; Provisional; Region: PRK05481 203275003563 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 203275003564 FeS/SAM binding site; other site 203275003565 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 203275003566 nudix motif; other site 203275003567 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 203275003568 active site 203275003569 metal binding site [ion binding]; metal-binding site 203275003570 homotetramer interface [polypeptide binding]; other site 203275003571 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 203275003572 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 203275003573 aspartate aminotransferase; Provisional; Region: PRK05764 203275003574 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 203275003575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275003576 homodimer interface [polypeptide binding]; other site 203275003577 catalytic residue [active] 203275003578 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 203275003579 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 203275003580 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 203275003581 dimerization interface [polypeptide binding]; other site 203275003582 active site 203275003583 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 203275003584 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 203275003585 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 203275003586 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 203275003587 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 203275003588 transcription termination factor NusA; Region: NusA; TIGR01953 203275003589 NusA N-terminal domain; Region: NusA_N; pfam08529 203275003590 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 203275003591 RNA binding site [nucleotide binding]; other site 203275003592 homodimer interface [polypeptide binding]; other site 203275003593 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 203275003594 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 203275003595 G-X-X-G motif; other site 203275003596 translation initiation factor IF-2; Region: IF-2; TIGR00487 203275003597 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 203275003598 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 203275003599 G1 box; other site 203275003600 putative GEF interaction site [polypeptide binding]; other site 203275003601 GTP/Mg2+ binding site [chemical binding]; other site 203275003602 Switch I region; other site 203275003603 G2 box; other site 203275003604 G3 box; other site 203275003605 Switch II region; other site 203275003606 G4 box; other site 203275003607 G5 box; other site 203275003608 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 203275003609 Translation-initiation factor 2; Region: IF-2; pfam11987 203275003610 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 203275003611 Colicin V production protein; Region: Colicin_V; cl00567 203275003612 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 203275003613 putative ABC transporter; Region: ycf24; CHL00085 203275003614 FeS assembly ATPase SufC; Region: sufC; TIGR01978 203275003615 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 203275003616 Walker A/P-loop; other site 203275003617 ATP binding site [chemical binding]; other site 203275003618 Q-loop/lid; other site 203275003619 ABC transporter signature motif; other site 203275003620 Walker B; other site 203275003621 D-loop; other site 203275003622 H-loop/switch region; other site 203275003623 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 203275003624 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 203275003625 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 203275003626 Domain of unknown function DUF20; Region: UPF0118; pfam01594 203275003627 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 203275003628 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 203275003629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003630 NeuB family; Region: NeuB; cl00496 203275003631 Chorismate mutase type II; Region: CM_2; cl00693 203275003632 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 203275003633 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 203275003634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275003635 homodimer interface [polypeptide binding]; other site 203275003636 catalytic residue [active] 203275003637 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 203275003638 Prephenate dehydratase; Region: PDT; pfam00800 203275003639 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 203275003640 putative L-Phe binding site [chemical binding]; other site 203275003641 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 203275003642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003643 NAD(P) binding site [chemical binding]; other site 203275003644 active site 203275003645 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 203275003646 putative dimer interface [polypeptide binding]; other site 203275003647 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 203275003648 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 203275003649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 203275003650 catalytic residue [active] 203275003651 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275003652 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 203275003653 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 203275003654 RNA/DNA hybrid binding site [nucleotide binding]; other site 203275003655 active site 203275003656 Fe-S metabolism associated domain; Region: SufE; cl00951 203275003657 M28 Zn-Peptidases; Region: M28_like_6; cd08656 203275003658 metal binding site [ion binding]; metal-binding site 203275003659 Peptidase C26; Region: Peptidase_C26; pfam07722 203275003660 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 203275003661 catalytic triad [active] 203275003662 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 203275003663 active site 203275003664 dimer interface [polypeptide binding]; other site 203275003665 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 203275003666 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 203275003667 ATP binding site [chemical binding]; other site 203275003668 Mg2+ binding site [ion binding]; other site 203275003669 G-X-G motif; other site 203275003670 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 203275003671 anchoring element; other site 203275003672 dimer interface [polypeptide binding]; other site 203275003673 ATP binding site [chemical binding]; other site 203275003674 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 203275003675 active site 203275003676 putative metal-binding site [ion binding]; other site 203275003677 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 203275003678 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 203275003679 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 203275003680 putative active site [active] 203275003681 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275003682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275003683 Walker A/P-loop; other site 203275003684 ATP binding site [chemical binding]; other site 203275003685 Q-loop/lid; other site 203275003686 ABC transporter signature motif; other site 203275003687 Walker B; other site 203275003688 D-loop; other site 203275003689 H-loop/switch region; other site 203275003690 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 203275003691 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 203275003692 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275003693 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 203275003694 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 203275003695 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 203275003696 Erythromycin esterase; Region: Erythro_esteras; pfam05139 203275003697 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 203275003698 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275003699 FecR protein; Region: FecR; pfam04773 203275003700 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275003701 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003702 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003703 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275003704 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003705 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003706 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003707 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275003708 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 203275003709 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 203275003710 catalytic residues [active] 203275003711 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 203275003712 metal binding site 2 [ion binding]; metal-binding site 203275003713 putative DNA binding helix; other site 203275003714 metal binding site 1 [ion binding]; metal-binding site 203275003715 dimer interface [polypeptide binding]; other site 203275003716 structural Zn2+ binding site [ion binding]; other site 203275003717 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 203275003718 catalytic residues [active] 203275003719 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 203275003720 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 203275003721 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 203275003722 generic binding surface II; other site 203275003723 generic binding surface I; other site 203275003724 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275003725 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 203275003726 active site 203275003727 dimer interfaces [polypeptide binding]; other site 203275003728 catalytic residues [active] 203275003729 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 203275003730 binding surface 203275003731 TPR motif; other site 203275003732 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 203275003733 TPR motif; other site 203275003734 binding surface 203275003735 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 203275003736 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 203275003737 catalytic residues [active] 203275003738 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 203275003739 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 203275003740 ATP binding site [chemical binding]; other site 203275003741 putative Mg++ binding site [ion binding]; other site 203275003742 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 203275003743 nucleotide binding region [chemical binding]; other site 203275003744 ATP-binding site [chemical binding]; other site 203275003745 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 203275003746 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 203275003747 DHH family; Region: DHH; pfam01368 203275003748 DHHA1 domain; Region: DHHA1; pfam02272 203275003749 Protein of unknown function (DUF456); Region: DUF456; cl01069 203275003750 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 203275003751 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 203275003752 putative active site [active] 203275003753 substrate binding site [chemical binding]; other site 203275003754 putative cosubstrate binding site; other site 203275003755 catalytic site [active] 203275003756 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 203275003757 substrate binding site [chemical binding]; other site 203275003758 heat shock protein 90; Provisional; Region: PRK05218 203275003759 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 203275003760 ATP binding site [chemical binding]; other site 203275003761 Mg2+ binding site [ion binding]; other site 203275003762 G-X-G motif; other site 203275003763 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 203275003764 Clp amino terminal domain; Region: Clp_N; pfam02861 203275003765 Clp amino terminal domain; Region: Clp_N; pfam02861 203275003766 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 203275003767 Walker A motif; other site 203275003768 ATP binding site [chemical binding]; other site 203275003769 Walker B motif; other site 203275003770 arginine finger; other site 203275003771 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 203275003772 Walker A motif; other site 203275003773 ATP binding site [chemical binding]; other site 203275003774 Walker B motif; other site 203275003775 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 203275003776 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 203275003777 Domain of unknown function DUF21; Region: DUF21; pfam01595 203275003778 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 203275003779 Transporter associated domain; Region: CorC_HlyC; cl08393 203275003780 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 203275003781 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 203275003782 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 203275003783 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 203275003784 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 203275003785 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 203275003786 dimer interface [polypeptide binding]; other site 203275003787 motif 1; other site 203275003788 active site 203275003789 motif 2; other site 203275003790 motif 3; other site 203275003791 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 203275003792 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 203275003793 minor groove reading motif; other site 203275003794 helix-hairpin-helix signature motif; other site 203275003795 substrate binding pocket [chemical binding]; other site 203275003796 active site 203275003797 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 203275003798 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 203275003799 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 203275003800 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 203275003801 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 203275003802 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 203275003803 Protein of unknown function, DUF288; Region: DUF288; pfam03385 203275003804 Helix-turn-helix domains; Region: HTH; cl00088 203275003805 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 203275003806 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 203275003807 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 203275003808 Helix-turn-helix domains; Region: HTH; cl00088 203275003809 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 203275003810 catalytic residues [active] 203275003811 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 203275003812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 203275003813 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 203275003814 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 203275003815 active site residue [active] 203275003816 SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that...; Region: SirA_RHOD_Pry_redox; cd03420 203275003817 CPxP motif; other site 203275003818 DsrE/DsrF-like family; Region: DrsE; cl00672 203275003819 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 203275003820 active site 203275003821 catalytic triad [active] 203275003822 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 203275003823 Shikimate kinase; Region: SKI; pfam01202 203275003824 ADP binding site [chemical binding]; other site 203275003825 magnesium binding site [ion binding]; other site 203275003826 putative shikimate binding site; other site 203275003827 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 203275003828 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 203275003829 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 203275003830 dimer interface [polypeptide binding]; other site 203275003831 PYR/PP interface [polypeptide binding]; other site 203275003832 TPP binding site [chemical binding]; other site 203275003833 substrate binding site [chemical binding]; other site 203275003834 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 203275003835 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 203275003836 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 203275003837 TPP-binding site [chemical binding]; other site 203275003838 FtsX-like permease family; Region: FtsX; cl15850 203275003839 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 203275003840 Bacitracin resistance protein BacA; Region: BacA; cl00858 203275003841 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 203275003842 RNA binding site [nucleotide binding]; other site 203275003843 active site 203275003844 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 203275003845 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 203275003846 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 203275003847 catalytic center binding site [active] 203275003848 ATP binding site [chemical binding]; other site 203275003849 conserved hypothetical protein; Region: TIGR02231 203275003850 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 203275003851 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 203275003852 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 203275003853 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 203275003854 N-terminal plug; other site 203275003855 ligand-binding site [chemical binding]; other site 203275003856 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 203275003857 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 203275003858 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275003859 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 203275003860 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 203275003861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275003862 homodimer interface [polypeptide binding]; other site 203275003863 catalytic residue [active] 203275003864 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275003865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275003866 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 203275003867 DNA binding residues [nucleotide binding] 203275003868 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 203275003869 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 203275003870 RNA binding site [nucleotide binding]; other site 203275003871 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 203275003872 RNA binding site [nucleotide binding]; other site 203275003873 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 203275003874 RNA binding site [nucleotide binding]; other site 203275003875 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 203275003876 RNA binding site [nucleotide binding]; other site 203275003877 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 203275003878 RNA binding site [nucleotide binding]; other site 203275003879 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 203275003880 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 203275003881 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 203275003882 NAD binding site [chemical binding]; other site 203275003883 homotetramer interface [polypeptide binding]; other site 203275003884 homodimer interface [polypeptide binding]; other site 203275003885 substrate binding site [chemical binding]; other site 203275003886 active site 203275003887 hybrid cluster protein; Provisional; Region: PRK05290 203275003888 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 203275003889 ACS interaction site; other site 203275003890 CODH interaction site; other site 203275003891 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 203275003892 hybrid metal cluster; other site 203275003893 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 203275003894 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 203275003895 G1 box; other site 203275003896 putative GEF interaction site [polypeptide binding]; other site 203275003897 GTP/Mg2+ binding site [chemical binding]; other site 203275003898 Switch I region; other site 203275003899 G2 box; other site 203275003900 G3 box; other site 203275003901 Switch II region; other site 203275003902 G4 box; other site 203275003903 G5 box; other site 203275003904 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 203275003905 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 203275003906 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 203275003907 16S/18S rRNA binding site [nucleotide binding]; other site 203275003908 S13e-L30e interaction site [polypeptide binding]; other site 203275003909 25S rRNA binding site [nucleotide binding]; other site 203275003910 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 203275003911 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 203275003912 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 203275003913 ligand binding site [chemical binding]; other site 203275003914 flexible hinge region; other site 203275003915 Helix-turn-helix domains; Region: HTH; cl00088 203275003916 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 203275003917 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 203275003918 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 203275003919 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 203275003920 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 203275003921 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275003922 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275003923 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 203275003924 DNA binding residues [nucleotide binding] 203275003925 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275003926 FecR protein; Region: FecR; pfam04773 203275003927 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275003928 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275003929 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275003930 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275003931 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275003932 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275003933 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275003934 SusD family; Region: SusD; pfam07980 203275003935 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275003936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003937 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 203275003938 NigD-like protein; Region: NigD; pfam12667 203275003939 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 203275003940 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 203275003941 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 203275003942 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 203275003943 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 203275003944 Cl- selectivity filter; other site 203275003945 Cl- binding residues [ion binding]; other site 203275003946 pore gating glutamate residue; other site 203275003947 dimer interface [polypeptide binding]; other site 203275003948 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 203275003949 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 203275003950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003951 Bacterial sugar transferase; Region: Bac_transf; cl00939 203275003952 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 203275003953 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 203275003954 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 203275003955 active site 203275003956 trimer interface [polypeptide binding]; other site 203275003957 allosteric site; other site 203275003958 active site lid [active] 203275003959 hexamer (dimer of trimers) interface [polypeptide binding]; other site 203275003960 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 203275003961 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 203275003962 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 203275003963 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 203275003964 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 203275003965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003966 acetylornithine aminotransferase; Provisional; Region: PRK02627 203275003967 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 203275003968 inhibitor-cofactor binding pocket; inhibition site 203275003969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275003970 catalytic residue [active] 203275003971 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 203275003972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275003973 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 203275003974 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 203275003975 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 203275003976 Ligand Binding Site [chemical binding]; other site 203275003977 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275003978 Arginine repressor [Transcription]; Region: ArgR; COG1438 203275003979 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 203275003980 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 203275003981 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 203275003982 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275003983 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 203275003984 binding surface 203275003985 TPR motif; other site 203275003986 nucleoside transporter; Region: 2A0110; TIGR00889 203275003987 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 203275003988 putative substrate translocation pore; other site 203275003989 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275003990 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 203275003991 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 203275003992 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 203275003993 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 203275003994 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 203275003995 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 203275003996 Walker A/P-loop; other site 203275003997 ATP binding site [chemical binding]; other site 203275003998 Q-loop/lid; other site 203275003999 ABC transporter signature motif; other site 203275004000 Walker B; other site 203275004001 D-loop; other site 203275004002 H-loop/switch region; other site 203275004003 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 203275004004 ABC-2 type transporter; Region: ABC2_membrane; cl11417 203275004005 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 203275004006 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 203275004007 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 203275004008 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 203275004009 Survival protein SurE; Region: SurE; cl00448 203275004010 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 203275004011 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 203275004012 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 203275004013 putative active site [active] 203275004014 catalytic site [active] 203275004015 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 203275004016 putative active site [active] 203275004017 catalytic site [active] 203275004018 Methyltransferase domain; Region: Methyltransf_31; pfam13847 203275004019 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 203275004020 S-adenosylmethionine binding site [chemical binding]; other site 203275004021 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 203275004022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004023 Family description; Region: UvrD_C_2; cl15862 203275004024 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 203275004025 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 203275004026 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 203275004027 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 203275004028 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 203275004029 active site 203275004030 motif I; other site 203275004031 motif II; other site 203275004032 cobyric acid synthase; Provisional; Region: PRK00784 203275004033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004034 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 203275004035 catalytic triad [active] 203275004036 CobD/Cbib protein; Region: CobD_Cbib; cl00561 203275004037 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 203275004038 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 203275004039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275004040 homodimer interface [polypeptide binding]; other site 203275004041 catalytic residue [active] 203275004042 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 203275004043 homotrimer interaction site [polypeptide binding]; other site 203275004044 putative active site [active] 203275004045 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 203275004046 homotrimer interaction site [polypeptide binding]; other site 203275004047 zinc binding site [ion binding]; other site 203275004048 CDP-binding sites; other site 203275004049 recombination factor protein RarA; Reviewed; Region: PRK13342 203275004050 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 203275004051 Walker A motif; other site 203275004052 ATP binding site [chemical binding]; other site 203275004053 Walker B motif; other site 203275004054 arginine finger; other site 203275004055 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 203275004056 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 203275004057 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275004058 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 203275004059 Family description; Region: VCBS; pfam13517 203275004060 Family description; Region: VCBS; pfam13517 203275004061 Family description; Region: VCBS; pfam13517 203275004062 Family description; Region: VCBS; pfam13517 203275004063 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 203275004064 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 203275004065 RHS Repeat; Region: RHS_repeat; cl11982 203275004066 RHS Repeat; Region: RHS_repeat; cl11982 203275004067 RHS Repeat; Region: RHS_repeat; cl11982 203275004068 RHS Repeat; Region: RHS_repeat; cl11982 203275004069 RHS Repeat; Region: RHS_repeat; cl11982 203275004070 RHS Repeat; Region: RHS_repeat; cl11982 203275004071 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 203275004072 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 203275004073 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 203275004074 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 203275004075 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 203275004076 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 203275004077 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 203275004078 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 203275004079 nucleoside/Zn binding site; other site 203275004080 dimer interface [polypeptide binding]; other site 203275004081 catalytic motif [active] 203275004082 CAAX protease self-immunity; Region: Abi; cl00558 203275004083 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 203275004084 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 203275004085 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 203275004086 putative tRNA-binding site [nucleotide binding]; other site 203275004087 B3/4 domain; Region: B3_4; cl11458 203275004088 tRNA synthetase B5 domain; Region: B5; cl08394 203275004089 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 203275004090 dimer interface [polypeptide binding]; other site 203275004091 motif 1; other site 203275004092 motif 3; other site 203275004093 motif 2; other site 203275004094 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 203275004095 Transcriptional regulator; Region: Transcrip_reg; cl00361 203275004096 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 203275004097 active site 203275004098 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 203275004099 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 203275004100 active site 203275004101 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 203275004102 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 203275004103 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 203275004104 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase...; Region: PGM_like4; cd05803 203275004105 active site 203275004106 substrate binding site [chemical binding]; other site 203275004107 metal binding site [ion binding]; metal-binding site 203275004108 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 203275004109 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 203275004110 NlpC/P60 family; Region: NLPC_P60; cl11438 203275004111 seryl-tRNA synthetase; Provisional; Region: PRK05431 203275004112 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 203275004113 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 203275004114 dimer interface [polypeptide binding]; other site 203275004115 active site 203275004116 motif 1; other site 203275004117 motif 2; other site 203275004118 motif 3; other site 203275004119 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 203275004120 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 203275004121 putative active site [active] 203275004122 putative metal binding site [ion binding]; other site 203275004123 Fic family protein [Function unknown]; Region: COG3177 203275004124 Fic/DOC family; Region: Fic; cl00960 203275004125 Helix-turn-helix domains; Region: HTH; cl00088 203275004126 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275004127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004128 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 203275004129 ABC-ATPase subunit interface; other site 203275004130 dimer interface [polypeptide binding]; other site 203275004131 putative PBP binding regions; other site 203275004132 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 203275004133 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 203275004134 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 203275004135 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 203275004136 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 203275004137 Motility related/secretion protein; Region: SprA_N; pfam14349 203275004138 Motility related/secretion protein; Region: SprA_N; pfam14349 203275004139 Motility related/secretion protein; Region: SprA_N; pfam14349 203275004140 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 203275004141 RuvA N terminal domain; Region: RuvA_N; pfam01330 203275004142 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 203275004143 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 203275004144 Predicted RNA interaction site [nucleotide binding]; other site 203275004145 putative binding site; other site 203275004146 Mutations affecting start-site selection; other site 203275004147 putative recombination protein RecB; Provisional; Region: PRK13909 203275004148 Family description; Region: UvrD_C_2; cl15862 203275004149 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 203275004150 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 203275004151 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 203275004152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275004153 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 203275004154 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 203275004155 HflX GTPase family; Region: HflX; cd01878 203275004156 G1 box; other site 203275004157 GTP/Mg2+ binding site [chemical binding]; other site 203275004158 Switch I region; other site 203275004159 G2 box; other site 203275004160 G3 box; other site 203275004161 Switch II region; other site 203275004162 G4 box; other site 203275004163 G5 box; other site 203275004164 YARHG domain; Region: YARHG; pfam13308 203275004165 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 203275004166 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275004167 LemA family; Region: LemA; cl00742 203275004168 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 203275004169 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 203275004170 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 203275004171 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 203275004172 active site 203275004173 metal binding site [ion binding]; metal-binding site 203275004174 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 203275004175 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 203275004176 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275004177 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275004178 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275004179 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275004180 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275004181 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275004182 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275004183 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 203275004184 binding surface 203275004185 Tetratricopeptide repeat; Region: TPR_16; pfam13432 203275004186 TPR motif; other site 203275004187 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 203275004188 dimer interface [polypeptide binding]; other site 203275004189 phosphorylation site [posttranslational modification] 203275004190 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 203275004191 ATP binding site [chemical binding]; other site 203275004192 Mg2+ binding site [ion binding]; other site 203275004193 G-X-G motif; other site 203275004194 Response regulator receiver domain; Region: Response_reg; pfam00072 203275004195 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 203275004196 active site 203275004197 phosphorylation site [posttranslational modification] 203275004198 intermolecular recognition site; other site 203275004199 dimerization interface [polypeptide binding]; other site 203275004200 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 203275004201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275004202 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 203275004203 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 203275004204 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 203275004205 active site 203275004206 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 203275004207 PA14 domain; Region: PA14; cl08459 203275004208 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 203275004209 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 203275004210 dimer interface [polypeptide binding]; other site 203275004211 active site 203275004212 glycine-pyridoxal phosphate binding site [chemical binding]; other site 203275004213 folate binding site [chemical binding]; other site 203275004214 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 203275004215 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 203275004216 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 203275004217 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 203275004218 Recombination protein O N terminal; Region: RecO_N; cl15812 203275004219 Recombination protein O C terminal; Region: RecO_C; pfam02565 203275004220 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 203275004221 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 203275004222 HIGH motif; other site 203275004223 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 203275004224 active site 203275004225 KMSKS motif; other site 203275004226 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 203275004227 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 203275004228 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 203275004229 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 203275004230 putative active site [active] 203275004231 putative metal binding site [ion binding]; other site 203275004232 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 203275004233 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 203275004234 trimer interface [polypeptide binding]; other site 203275004235 putative metal binding site [ion binding]; other site 203275004236 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 203275004237 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 203275004238 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 203275004239 active site 203275004240 DNA binding site [nucleotide binding] 203275004241 Int/Topo IB signature motif; other site 203275004242 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 203275004243 30S subunit binding site; other site 203275004244 elongation factor Tu; Reviewed; Region: PRK12735 203275004245 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 203275004246 G1 box; other site 203275004247 GEF interaction site [polypeptide binding]; other site 203275004248 GTP/Mg2+ binding site [chemical binding]; other site 203275004249 Switch I region; other site 203275004250 G2 box; other site 203275004251 G3 box; other site 203275004252 Switch II region; other site 203275004253 G4 box; other site 203275004254 G5 box; other site 203275004255 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 203275004256 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 203275004257 Antibiotic Binding Site [chemical binding]; other site 203275004258 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 203275004259 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 203275004260 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 203275004261 putative homodimer interface [polypeptide binding]; other site 203275004262 KOW motif; Region: KOW; cl00354 203275004263 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 203275004264 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 203275004265 23S rRNA interface [nucleotide binding]; other site 203275004266 L7/L12 interface [polypeptide binding]; other site 203275004267 putative thiostrepton binding site; other site 203275004268 L25 interface [polypeptide binding]; other site 203275004269 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 203275004270 mRNA/rRNA interface [nucleotide binding]; other site 203275004271 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 203275004272 23S rRNA interface [nucleotide binding]; other site 203275004273 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 203275004274 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 203275004275 core dimer interface [polypeptide binding]; other site 203275004276 peripheral dimer interface [polypeptide binding]; other site 203275004277 L10 interface [polypeptide binding]; other site 203275004278 L11 interface [polypeptide binding]; other site 203275004279 putative EF-Tu interaction site [polypeptide binding]; other site 203275004280 putative EF-G interaction site [polypeptide binding]; other site 203275004281 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 203275004282 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 203275004283 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 203275004284 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 203275004285 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 203275004286 RPB12 interaction site [polypeptide binding]; other site 203275004287 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 203275004288 RPB11 interaction site [polypeptide binding]; other site 203275004289 RPB12 interaction site [polypeptide binding]; other site 203275004290 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 203275004291 RPB3 interaction site [polypeptide binding]; other site 203275004292 RPB1 interaction site [polypeptide binding]; other site 203275004293 RPB11 interaction site [polypeptide binding]; other site 203275004294 RPB10 interaction site [polypeptide binding]; other site 203275004295 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 203275004296 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 203275004297 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 203275004298 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 203275004299 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 203275004300 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 203275004301 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 203275004302 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 203275004303 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 203275004304 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 203275004305 DNA binding site [nucleotide binding] 203275004306 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 203275004307 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 203275004308 chorismate binding enzyme; Region: Chorismate_bind; cl10555 203275004309 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 203275004310 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 203275004311 dimer interface [polypeptide binding]; other site 203275004312 tetramer interface [polypeptide binding]; other site 203275004313 PYR/PP interface [polypeptide binding]; other site 203275004314 TPP binding site [chemical binding]; other site 203275004315 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 203275004316 TPP-binding site; other site 203275004317 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 203275004318 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 203275004319 substrate binding site [chemical binding]; other site 203275004320 oxyanion hole (OAH) forming residues; other site 203275004321 trimer interface [polypeptide binding]; other site 203275004322 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 203275004323 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 203275004324 active site 203275004325 AMP-binding enzyme; Region: AMP-binding; cl15778 203275004326 acyl-CoA synthetase; Validated; Region: PRK08308 203275004327 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275004328 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 203275004329 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 203275004330 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 203275004331 Int/Topo IB signature motif; other site 203275004332 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 203275004333 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 203275004334 ATP binding site [chemical binding]; other site 203275004335 putative Mg++ binding site [ion binding]; other site 203275004336 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 203275004337 HsdM N-terminal domain; Region: HsdM_N; pfam12161 203275004338 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 203275004339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275004340 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 203275004341 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 203275004342 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 203275004343 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 203275004344 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 203275004345 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 203275004346 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 203275004347 active site 203275004348 DNA binding site [nucleotide binding] 203275004349 Int/Topo IB signature motif; other site 203275004350 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 203275004351 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 203275004352 Helix-turn-helix domains; Region: HTH; cl00088 203275004353 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 203275004354 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 203275004355 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275004356 endonuclease IV; Provisional; Region: PRK01060 203275004357 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 203275004358 AP (apurinic/apyrimidinic) site pocket; other site 203275004359 DNA interaction; other site 203275004360 Metal-binding active site; metal-binding site 203275004361 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 203275004362 Ligand binding site; other site 203275004363 Putative Catalytic site; other site 203275004364 DXD motif; other site 203275004365 AsmA family; Region: AsmA; pfam05170 203275004366 Family of unknown function (DUF490); Region: DUF490; pfam04357 203275004367 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 203275004368 Surface antigen; Region: Bac_surface_Ag; cl03097 203275004369 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 203275004370 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 203275004371 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 203275004372 active site 203275004373 catalytic site [active] 203275004374 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275004375 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 203275004376 S-adenosylmethionine binding site [chemical binding]; other site 203275004377 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 203275004378 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 203275004379 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 203275004380 Probable Catalytic site; other site 203275004381 metal-binding site 203275004382 Glycogen synthase [Carbohydrate transport and metabolism]; Region: GlgA; COG0297 203275004383 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 203275004384 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 203275004385 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 203275004386 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 203275004387 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 203275004388 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 203275004389 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 203275004390 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 203275004391 dimerization interface [polypeptide binding]; other site 203275004392 active site 203275004393 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004394 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 203275004395 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 203275004396 putative trimer interface [polypeptide binding]; other site 203275004397 putative active site [active] 203275004398 putative substrate binding site [chemical binding]; other site 203275004399 putative CoA binding site [chemical binding]; other site 203275004400 Predicted methyltransferases [General function prediction only]; Region: COG0313 203275004401 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275004402 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275004403 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275004404 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 203275004405 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275004406 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275004407 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275004408 PIF1-like helicase; Region: PIF1; pfam05970 203275004409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004410 Family description; Region: UvrD_C_2; cl15862 203275004411 HRDC domain; Region: HRDC; cl02578 203275004412 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 203275004413 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 203275004414 dimerization interface [polypeptide binding]; other site 203275004415 ATP binding site [chemical binding]; other site 203275004416 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 203275004417 dimerization interface [polypeptide binding]; other site 203275004418 ATP binding site [chemical binding]; other site 203275004419 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 203275004420 putative active site [active] 203275004421 catalytic triad [active] 203275004422 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 203275004423 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 203275004424 dimer interface [polypeptide binding]; other site 203275004425 phosphorylation site [posttranslational modification] 203275004426 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 203275004427 ATP binding site [chemical binding]; other site 203275004428 Mg2+ binding site [ion binding]; other site 203275004429 G-X-G motif; other site 203275004430 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 203275004431 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 203275004432 active site 203275004433 phosphorylation site [posttranslational modification] 203275004434 intermolecular recognition site; other site 203275004435 dimerization interface [polypeptide binding]; other site 203275004436 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 203275004437 DNA binding site [nucleotide binding] 203275004438 Protein of unknown function DUF45; Region: DUF45; cl00636 203275004439 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 203275004440 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 203275004441 DNA binding residues [nucleotide binding] 203275004442 FecR protein; Region: FecR; pfam04773 203275004443 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275004444 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275004445 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004446 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275004447 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275004448 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275004449 SusD family; Region: SusD; pfam07980 203275004450 Rhamnan synthesis protein F; Region: RgpF; cl01529 203275004451 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 203275004452 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 203275004453 putative NAD(P) binding site [chemical binding]; other site 203275004454 homodimer interface [polypeptide binding]; other site 203275004455 homotetramer interface [polypeptide binding]; other site 203275004456 active site 203275004457 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 203275004458 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 203275004459 active site 203275004460 polyphosphate kinase; Provisional; Region: PRK05443 203275004461 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 203275004462 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 203275004463 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 203275004464 domain interface [polypeptide binding]; other site 203275004465 active site 203275004466 catalytic site [active] 203275004467 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 203275004468 domain interface [polypeptide binding]; other site 203275004469 active site 203275004470 catalytic site [active] 203275004471 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 203275004472 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 203275004473 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 203275004474 Sulfatase; Region: Sulfatase; cl10460 203275004475 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 203275004476 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 203275004477 Tetramer interface [polypeptide binding]; other site 203275004478 active site 203275004479 FMN-binding site [chemical binding]; other site 203275004480 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275004481 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 203275004482 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 203275004483 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275004484 Active site serine [active] 203275004485 RIP metalloprotease RseP; Region: TIGR00054 203275004486 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 203275004487 active site 203275004488 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 203275004489 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 203275004490 putative substrate binding region [chemical binding]; other site 203275004491 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 203275004492 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 203275004493 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 203275004494 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 203275004495 Peptidase family M23; Region: Peptidase_M23; pfam01551 203275004496 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 203275004497 RimM N-terminal domain; Region: RimM; pfam01782 203275004498 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 203275004499 ThiC-associated domain; Region: ThiC-associated; pfam13667 203275004500 ThiC family; Region: ThiC; cl08031 203275004501 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 203275004502 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 203275004503 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 203275004504 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 203275004505 RNA binding site [nucleotide binding]; other site 203275004506 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 203275004507 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 203275004508 active site 203275004509 catalytic residues [active] 203275004510 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 203275004511 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 203275004512 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 203275004513 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 203275004514 galactokinase; Provisional; Region: PRK03817 203275004515 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 203275004516 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 203275004517 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 203275004518 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 203275004519 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004520 Walker A/P-loop; other site 203275004521 ATP binding site [chemical binding]; other site 203275004522 ABC transporter signature motif; other site 203275004523 Walker B; other site 203275004524 D-loop; other site 203275004525 H-loop/switch region; other site 203275004526 ABC transporter; Region: ABC_tran_2; pfam12848 203275004527 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275004528 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 203275004529 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 203275004530 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH_2; cd04602 203275004531 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 203275004532 active site 203275004533 FeoA domain; Region: FeoA; cl00838 203275004534 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 203275004535 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 203275004536 G1 box; other site 203275004537 GTP/Mg2+ binding site [chemical binding]; other site 203275004538 Switch I region; other site 203275004539 G2 box; other site 203275004540 G3 box; other site 203275004541 Switch II region; other site 203275004542 G4 box; other site 203275004543 G5 box; other site 203275004544 Nucleoside recognition; Region: Gate; cl00486 203275004545 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 203275004546 Nucleoside recognition; Region: Gate; cl00486 203275004547 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 203275004548 Histidine kinase; Region: His_kinase; pfam06580 203275004549 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 203275004550 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 203275004551 active site 203275004552 phosphorylation site [posttranslational modification] 203275004553 intermolecular recognition site; other site 203275004554 dimerization interface [polypeptide binding]; other site 203275004555 LytTr DNA-binding domain; Region: LytTR; cl04498 203275004556 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275004557 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275004558 PcfJ-like protein; Region: PcfJ; pfam14284 203275004559 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 203275004560 ATP binding site [chemical binding]; other site 203275004561 substrate binding site [chemical binding]; other site 203275004562 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 203275004563 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 203275004564 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 203275004565 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 203275004566 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 203275004567 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 203275004568 4Fe-4S binding domain; Region: Fer4_5; pfam12801 203275004569 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 203275004570 4Fe-4S binding domain; Region: Fer4; cl02805 203275004571 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 203275004572 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 203275004573 active site 203275004574 catalytic tetrad [active] 203275004575 enolase; Provisional; Region: eno; PRK00077 203275004576 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 203275004577 dimer interface [polypeptide binding]; other site 203275004578 metal binding site [ion binding]; metal-binding site 203275004579 substrate binding pocket [chemical binding]; other site 203275004580 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 203275004581 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 203275004582 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 203275004583 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 203275004584 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 203275004585 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 203275004586 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004587 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 203275004588 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 203275004589 N-terminal plug; other site 203275004590 ligand-binding site [chemical binding]; other site 203275004591 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004592 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 203275004593 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 203275004594 N-terminal plug; other site 203275004595 ligand-binding site [chemical binding]; other site 203275004596 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 203275004597 ATP cone domain; Region: ATP-cone; pfam03477 203275004598 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 203275004599 Class I ribonucleotide reductase; Region: RNR_I; cd01679 203275004600 active site 203275004601 dimer interface [polypeptide binding]; other site 203275004602 catalytic residues [active] 203275004603 effector binding site; other site 203275004604 R2 peptide binding site; other site 203275004605 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 203275004606 dimer interface [polypeptide binding]; other site 203275004607 putative radical transfer pathway; other site 203275004608 diiron center [ion binding]; other site 203275004609 tyrosyl radical; other site 203275004610 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275004611 Right handed beta helix region; Region: Beta_helix; pfam13229 203275004612 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275004613 Transposase domain (DUF772); Region: DUF772; cl15789 203275004614 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275004615 Transposase domain (DUF772); Region: DUF772; cl15789 203275004616 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 203275004617 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 203275004618 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 203275004619 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004620 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 203275004621 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 203275004622 23S rRNA interface [nucleotide binding]; other site 203275004623 L3 interface [polypeptide binding]; other site 203275004624 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 203275004625 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 203275004626 rRNA interaction site [nucleotide binding]; other site 203275004627 S8 interaction site; other site 203275004628 putative laminin-1 binding site; other site 203275004629 elongation factor Ts; Provisional; Region: tsf; PRK09377 203275004630 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 203275004631 Elongation factor TS; Region: EF_TS; pfam00889 203275004632 Elongation factor TS; Region: EF_TS; pfam00889 203275004633 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 203275004634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004635 Walker A/P-loop; other site 203275004636 ATP binding site [chemical binding]; other site 203275004637 Q-loop/lid; other site 203275004638 ABC transporter signature motif; other site 203275004639 Walker B; other site 203275004640 D-loop; other site 203275004641 H-loop/switch region; other site 203275004642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 203275004643 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 203275004644 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 203275004645 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275004646 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275004647 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004648 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275004649 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275004650 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 203275004651 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 203275004652 ATP-grasp domain; Region: ATP-grasp_4; cl03087 203275004653 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 203275004654 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 203275004655 ATP-grasp domain; Region: ATP-grasp_4; cl03087 203275004656 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 203275004657 probable substrate binding site [chemical binding]; other site 203275004658 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 203275004659 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 203275004660 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 203275004661 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 203275004662 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 203275004663 putative carbohydrate kinase; Provisional; Region: PRK10565 203275004664 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 203275004665 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 203275004666 putative substrate binding site [chemical binding]; other site 203275004667 putative ATP binding site [chemical binding]; other site 203275004668 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 203275004669 Cell division protein ZapA; Region: ZapA; cl01146 203275004670 phosphodiesterase; Provisional; Region: PRK12704 203275004671 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 203275004672 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 203275004673 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 203275004674 active site 203275004675 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 203275004676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004677 Walker A/P-loop; other site 203275004678 ATP binding site [chemical binding]; other site 203275004679 Q-loop/lid; other site 203275004680 ABC transporter signature motif; other site 203275004681 Walker B; other site 203275004682 D-loop; other site 203275004683 H-loop/switch region; other site 203275004684 ABC transporter; Region: ABC_tran_2; pfam12848 203275004685 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275004686 Cupin domain; Region: Cupin_2; cl09118 203275004687 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 203275004688 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 203275004689 NAD binding site [chemical binding]; other site 203275004690 substrate binding site [chemical binding]; other site 203275004691 homodimer interface [polypeptide binding]; other site 203275004692 active site 203275004693 recombination protein RecR; Reviewed; Region: recR; PRK00076 203275004694 RecR protein; Region: RecR; pfam02132 203275004695 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 203275004696 putative active site [active] 203275004697 putative metal-binding site [ion binding]; other site 203275004698 tetramer interface [polypeptide binding]; other site 203275004699 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 203275004700 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 203275004701 Probable Catalytic site; other site 203275004702 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 203275004703 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 203275004704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 203275004705 Coenzyme A binding pocket [chemical binding]; other site 203275004706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275004707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275004708 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 203275004709 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 203275004710 ligand binding site [chemical binding]; other site 203275004711 active site 203275004712 UGI interface [polypeptide binding]; other site 203275004713 catalytic site [active] 203275004714 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 203275004715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 203275004716 Zn2+ binding site [ion binding]; other site 203275004717 Mg2+ binding site [ion binding]; other site 203275004718 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 203275004719 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 203275004720 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 203275004721 catalytic loop [active] 203275004722 iron binding site [ion binding]; other site 203275004723 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 203275004724 FAD binding pocket [chemical binding]; other site 203275004725 FAD binding motif [chemical binding]; other site 203275004726 phosphate binding motif [ion binding]; other site 203275004727 beta-alpha-beta structure motif; other site 203275004728 NAD binding pocket [chemical binding]; other site 203275004729 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 203275004730 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 203275004731 FMN-binding domain; Region: FMN_bind; cl01081 203275004732 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 203275004733 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 203275004734 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 203275004735 lipoyl-biotinyl attachment site [posttranslational modification]; other site 203275004736 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 203275004737 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 203275004738 putative catalytic site [active] 203275004739 putative metal binding site [ion binding]; other site 203275004740 putative phosphate binding site [ion binding]; other site 203275004741 Peptidase family M23; Region: Peptidase_M23; pfam01551 203275004742 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 203275004743 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 203275004744 active site 203275004745 substrate binding site [chemical binding]; other site 203275004746 metal binding site [ion binding]; metal-binding site 203275004747 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 203275004748 GTPase CgtA; Reviewed; Region: obgE; PRK12298 203275004749 GTP1/OBG; Region: GTP1_OBG; pfam01018 203275004750 Obg GTPase; Region: Obg; cd01898 203275004751 G1 box; other site 203275004752 GTP/Mg2+ binding site [chemical binding]; other site 203275004753 Switch I region; other site 203275004754 G2 box; other site 203275004755 G3 box; other site 203275004756 Switch II region; other site 203275004757 G4 box; other site 203275004758 G5 box; other site 203275004759 adenylate kinase; Reviewed; Region: adk; PRK00279 203275004760 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 203275004761 AMP-binding site [chemical binding]; other site 203275004762 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 203275004763 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 203275004764 active site 203275004765 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 203275004766 Predicted ATPase [General function prediction only]; Region: COG4637 203275004767 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 203275004768 ABC transporter signature motif; other site 203275004769 Walker B; other site 203275004770 D-loop; other site 203275004771 H-loop/switch region; other site 203275004772 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 203275004773 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 203275004774 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 203275004775 putative metal binding site [ion binding]; other site 203275004776 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 203275004777 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 203275004778 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 203275004779 Ligand binding site; other site 203275004780 Putative Catalytic site; other site 203275004781 DXD motif; other site 203275004782 Sodium:solute symporter family; Region: SSF; cl00456 203275004783 Inner membrane protein CreD; Region: CreD; cl01844 203275004784 Helix-turn-helix domains; Region: HTH; cl00088 203275004785 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275004786 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 203275004787 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 203275004788 catalytic residues [active] 203275004789 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 203275004790 active site 203275004791 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275004792 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 203275004793 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 203275004794 NAD(P) binding site [chemical binding]; other site 203275004795 homotetramer interface [polypeptide binding]; other site 203275004796 homodimer interface [polypeptide binding]; other site 203275004797 active site 203275004798 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 203275004799 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 203275004800 dimer interface [polypeptide binding]; other site 203275004801 active site 203275004802 CoA binding pocket [chemical binding]; other site 203275004803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 203275004804 Helix-turn-helix domains; Region: HTH; cl00088 203275004805 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 203275004806 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 203275004807 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 203275004808 Fibronectin type III-like domain; Region: Fn3-like; cl15273 203275004809 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 203275004810 ligand binding site [chemical binding]; other site 203275004811 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 203275004812 Clp amino terminal domain; Region: Clp_N; pfam02861 203275004813 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 203275004814 Walker A motif; other site 203275004815 ATP binding site [chemical binding]; other site 203275004816 Walker B motif; other site 203275004817 arginine finger; other site 203275004818 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 203275004819 Walker A motif; other site 203275004820 ATP binding site [chemical binding]; other site 203275004821 Walker B motif; other site 203275004822 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 203275004823 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 203275004824 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 203275004825 substrate binding site [chemical binding]; other site 203275004826 dimerization interface [polypeptide binding]; other site 203275004827 active site 203275004828 calcium binding site [ion binding]; other site 203275004829 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275004830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004831 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 203275004832 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 203275004833 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 203275004834 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 203275004835 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 203275004836 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 203275004837 catalytic residue [active] 203275004838 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 203275004839 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 203275004840 dimerization interface [polypeptide binding]; other site 203275004841 putative active cleft [active] 203275004842 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 203275004843 putative substrate translocation pore; other site 203275004844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 203275004845 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004846 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275004847 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275004848 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275004849 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275004850 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 203275004851 catalytic site [active] 203275004852 Asp-box motif; other site 203275004853 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 203275004854 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 203275004855 active site 203275004856 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 203275004857 active site 203275004858 catalytic triad [active] 203275004859 oxyanion hole [active] 203275004860 Domain of unknown function (DUF303); Region: DUF303; pfam03629 203275004861 cyclically-permuted mutatrotase family protein; Region: mutarot_permut; TIGR03548 203275004862 Kelch motif; Region: Kelch_1; cl02701 203275004863 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 203275004864 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 203275004865 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 203275004866 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 203275004867 N-terminal plug; other site 203275004868 ligand-binding site [chemical binding]; other site 203275004869 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 203275004870 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 203275004871 active site 203275004872 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 203275004873 active site 203275004874 N-terminal domain interface [polypeptide binding]; other site 203275004875 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 203275004876 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 203275004877 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 203275004878 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004879 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 203275004880 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 203275004881 N-terminal plug; other site 203275004882 ligand-binding site [chemical binding]; other site 203275004883 ApbE family; Region: ApbE; cl00643 203275004884 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 203275004885 putative active site [active] 203275004886 putative metal binding site [ion binding]; other site 203275004887 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 203275004888 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 203275004889 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 203275004890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 203275004891 Zn2+ binding site [ion binding]; other site 203275004892 Mg2+ binding site [ion binding]; other site 203275004893 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 203275004894 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 203275004895 NVEALA protein; Region: NVEALA; pfam14055 203275004896 O-Antigen ligase; Region: Wzy_C; cl04850 203275004897 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 203275004898 binding surface 203275004899 TPR motif; other site 203275004900 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 203275004901 active site 203275004902 putative substrate binding region [chemical binding]; other site 203275004903 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004904 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004905 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 203275004906 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 203275004907 FeS/SAM binding site; other site 203275004908 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275004909 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 203275004910 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 203275004911 DNA binding residues [nucleotide binding] 203275004912 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004913 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 203275004914 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 203275004915 NAD binding site [chemical binding]; other site 203275004916 putative substrate binding site 2 [chemical binding]; other site 203275004917 putative substrate binding site 1 [chemical binding]; other site 203275004918 active site 203275004919 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 203275004920 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 203275004921 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 203275004922 non-specific DNA binding site [nucleotide binding]; other site 203275004923 salt bridge; other site 203275004924 sequence-specific DNA binding site [nucleotide binding]; other site 203275004925 Ribokinase-like subgroup D. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_D; cd01937 203275004926 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 203275004927 substrate binding site [chemical binding]; other site 203275004928 ATP binding site [chemical binding]; other site 203275004929 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 203275004930 active site 203275004931 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 203275004932 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 203275004933 pantothenate kinase; Provisional; Region: PRK05439 203275004934 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 203275004935 ATP-binding site [chemical binding]; other site 203275004936 CoA-binding site [chemical binding]; other site 203275004937 Mg2+-binding site [ion binding]; other site 203275004938 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 203275004939 Helix-turn-helix domains; Region: HTH; cl00088 203275004940 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275004941 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 203275004942 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 203275004943 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 203275004944 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 203275004945 Walker A/P-loop; other site 203275004946 ATP binding site [chemical binding]; other site 203275004947 Q-loop/lid; other site 203275004948 ABC transporter signature motif; other site 203275004949 Walker B; other site 203275004950 D-loop; other site 203275004951 H-loop/switch region; other site 203275004952 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 203275004953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275004954 Walker A/P-loop; other site 203275004955 ATP binding site [chemical binding]; other site 203275004956 Q-loop/lid; other site 203275004957 ABC transporter signature motif; other site 203275004958 Walker B; other site 203275004959 D-loop; other site 203275004960 H-loop/switch region; other site 203275004961 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 203275004962 ABC-2 type transporter; Region: ABC2_membrane; cl11417 203275004963 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 203275004964 ABC-2 type transporter; Region: ABC2_membrane; cl11417 203275004965 B3/4 domain; Region: B3_4; cl11458 203275004966 SusE outer membrane protein; Region: SusE; pfam14292 203275004967 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275004968 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275004969 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275004970 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275004971 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275004972 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 203275004973 Methyltransferase domain; Region: Methyltransf_31; pfam13847 203275004974 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 203275004975 S-adenosylmethionine binding site [chemical binding]; other site 203275004976 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 203275004977 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 203275004978 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 203275004979 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 203275004980 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 203275004981 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 203275004982 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 203275004983 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 203275004984 Rubredoxin; Region: Rubredoxin; pfam00301 203275004985 iron binding site [ion binding]; other site 203275004986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 203275004987 Helix-turn-helix domains; Region: HTH; cl00088 203275004988 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 203275004989 dimerization interface [polypeptide binding]; other site 203275004990 Ferritin-like domain; Region: Ferritin; pfam00210 203275004991 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 203275004992 dimerization interface [polypeptide binding]; other site 203275004993 DPS ferroxidase diiron center [ion binding]; other site 203275004994 ion pore; other site 203275004995 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 203275004996 Mechanosensitive ion channel; Region: MS_channel; pfam00924 203275004997 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 203275004998 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 203275004999 putative ATP binding site [chemical binding]; other site 203275005000 putative substrate interface [chemical binding]; other site 203275005001 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 203275005002 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 203275005003 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 203275005004 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005005 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005006 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005007 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005008 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275005009 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005010 KduI/IolB family; Region: KduI; cl01508 203275005011 Sulfatase; Region: Sulfatase; cl10460 203275005012 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 203275005013 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 203275005014 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 203275005015 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 203275005016 substrate binding site [chemical binding]; other site 203275005017 ATP binding site [chemical binding]; other site 203275005018 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 203275005019 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 203275005020 NADP binding site [chemical binding]; other site 203275005021 homodimer interface [polypeptide binding]; other site 203275005022 active site 203275005023 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 203275005024 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 203275005025 active site 203275005026 intersubunit interface [polypeptide binding]; other site 203275005027 catalytic residue [active] 203275005028 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 203275005029 Major Facilitator Superfamily; Region: MFS_1; pfam07690 203275005030 putative substrate translocation pore; other site 203275005031 Peptide-N-glycosidase F, N terminal; Region: N-glycanase_N; pfam09112 203275005032 Peptide-N-glycosidase F, C terminal; Region: N-glycanase_C; pfam09113 203275005033 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275005034 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 203275005035 FtsX-like permease family; Region: FtsX; cl15850 203275005036 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 203275005037 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 203275005038 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 203275005039 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 203275005040 O-Antigen ligase; Region: Wzy_C; cl04850 203275005041 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 203275005042 binding surface 203275005043 TPR motif; other site 203275005044 TPR repeat; Region: TPR_11; pfam13414 203275005045 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275005046 Integral membrane protein DUF95; Region: DUF95; cl00572 203275005047 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 203275005048 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 203275005049 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 203275005050 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 203275005051 substrate binding site; other site 203275005052 dimer interface; other site 203275005053 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 203275005054 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 203275005055 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 203275005056 generic binding surface II; other site 203275005057 generic binding surface I; other site 203275005058 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 203275005059 active site 203275005060 NAD binding site [chemical binding]; other site 203275005061 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 203275005062 active site 203275005063 catalytic triad [active] 203275005064 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 203275005065 motif 1; other site 203275005066 dimer interface [polypeptide binding]; other site 203275005067 active site 203275005068 motif 2; other site 203275005069 motif 3; other site 203275005070 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 203275005071 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 203275005072 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 203275005073 NAD synthetase; Reviewed; Region: nadE; PRK02628 203275005074 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 203275005075 multimer interface [polypeptide binding]; other site 203275005076 active site 203275005077 catalytic triad [active] 203275005078 protein interface 1 [polypeptide binding]; other site 203275005079 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 203275005080 homodimer interface [polypeptide binding]; other site 203275005081 NAD binding pocket [chemical binding]; other site 203275005082 ATP binding pocket [chemical binding]; other site 203275005083 Mg binding site [ion binding]; other site 203275005084 active-site loop [active] 203275005085 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 203275005086 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 203275005087 active site 203275005088 nucleophile elbow; other site 203275005089 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 203275005090 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 203275005091 agmatine deiminase; Region: agmatine_aguA; TIGR03380 203275005092 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 203275005093 N-carbamolyputrescine amidase; Region: PLN02747 203275005094 putative active site; other site 203275005095 catalytic triad [active] 203275005096 putative dimer interface [polypeptide binding]; other site 203275005097 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275005098 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275005099 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 203275005100 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 203275005101 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 203275005102 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09716 203275005103 CRISPR/Cas system-associated protein Cas8c; Region: Csp2_I-U; cd09715 203275005104 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cd09717 203275005105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275005106 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 203275005107 Fic family protein [Function unknown]; Region: COG3177 203275005108 Fic/DOC family; Region: Fic; cl00960 203275005109 Helix-turn-helix domains; Region: HTH; cl00088 203275005110 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 203275005111 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 203275005112 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 203275005113 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 203275005114 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 203275005115 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 203275005116 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 203275005117 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 203275005118 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 203275005119 CRISPR repeat region, Mtube subtype 203275005120 CRISPR spacer 203275005121 CRISPR spacer 203275005122 CRISPR spacer 203275005123 CRISPR spacer 203275005124 CRISPR spacer 203275005125 CRISPR spacer 203275005126 CRISPR spacer 203275005127 CRISPR spacer 203275005128 CRISPR spacer 203275005129 CRISPR spacer 203275005130 CRISPR spacer 203275005131 CRISPR spacer 203275005132 CRISPR spacer 203275005133 CRISPR spacer 203275005134 CRISPR spacer 203275005135 CRISPR spacer 203275005136 CRISPR spacer 203275005137 CRISPR spacer 203275005138 CRISPR spacer 203275005139 CRISPR spacer 203275005140 CRISPR spacer 203275005141 CRISPR spacer 203275005142 CRISPR spacer 203275005143 CRISPR spacer 203275005144 CRISPR spacer 203275005145 CRISPR spacer 203275005146 CRISPR spacer 203275005147 CRISPR spacer 203275005148 CRISPR spacer 203275005149 CRISPR spacer 203275005150 CRISPR spacer 203275005151 CRISPR spacer 203275005152 CRISPR spacer 203275005153 CRISPR spacer 203275005154 CRISPR spacer 203275005155 CRISPR spacer 203275005156 CRISPR spacer 203275005157 CRISPR spacer 203275005158 CRISPR spacer 203275005159 CRISPR spacer 203275005160 CRISPR spacer 203275005161 CRISPR spacer 203275005162 CRISPR spacer 203275005163 CRISPR spacer 203275005164 CRISPR spacer 203275005165 CRISPR spacer 203275005166 CRISPR spacer 203275005167 CRISPR spacer 203275005168 CRISPR spacer 203275005169 CRISPR spacer 203275005170 CRISPR spacer 203275005171 CRISPR spacer 203275005172 CRISPR spacer 203275005173 CRISPR spacer 203275005174 CRISPR spacer 203275005175 CRISPR spacer 203275005176 CRISPR spacer 203275005177 CRISPR spacer 203275005178 CRISPR spacer 203275005179 CRISPR spacer 203275005180 CRISPR spacer 203275005181 CRISPR spacer 203275005182 CRISPR spacer 203275005183 CRISPR spacer 203275005184 CRISPR spacer 203275005185 CRISPR spacer 203275005186 CRISPR spacer 203275005187 CRISPR spacer 203275005188 CRISPR spacer 203275005189 CRISPR spacer 203275005190 CRISPR spacer 203275005191 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 203275005192 Ferritin-like domain; Region: Ferritin; pfam00210 203275005193 ferroxidase diiron center [ion binding]; other site 203275005194 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 203275005195 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 203275005196 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 203275005197 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 203275005198 dimer interface [polypeptide binding]; other site 203275005199 active site 203275005200 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 203275005201 catalytic residues [active] 203275005202 substrate binding site [chemical binding]; other site 203275005203 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 203275005204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275005205 Family description; Region: UvrD_C_2; cl15862 203275005206 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 203275005207 IHF - DNA interface [nucleotide binding]; other site 203275005208 IHF dimer interface [polypeptide binding]; other site 203275005209 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 203275005210 homooctamer interface [polypeptide binding]; other site 203275005211 active site 203275005212 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 203275005213 4-alpha-glucanotransferase; Region: PLN02950 203275005214 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 203275005215 starch-binding site 1 [chemical binding]; other site 203275005216 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 203275005217 starch-binding site 2 [chemical binding]; other site 203275005218 starch-binding site 1 [chemical binding]; other site 203275005219 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 203275005220 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 203275005221 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 203275005222 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 203275005223 active site 203275005224 dimer interface [polypeptide binding]; other site 203275005225 effector binding site; other site 203275005226 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 203275005227 TSCPD domain; Region: TSCPD; cl14834 203275005228 Double zinc ribbon; Region: DZR; pfam12773 203275005229 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 203275005230 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 203275005231 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275005232 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 203275005233 FtsH Extracellular; Region: FtsH_ext; pfam06480 203275005234 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 203275005235 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 203275005236 Walker A motif; other site 203275005237 ATP binding site [chemical binding]; other site 203275005238 Walker B motif; other site 203275005239 arginine finger; other site 203275005240 Peptidase family M41; Region: Peptidase_M41; pfam01434 203275005241 Oligomerisation domain; Region: Oligomerisation; cl00519 203275005242 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275005243 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275005244 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 203275005245 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005246 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005247 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275005248 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005249 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005250 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275005251 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275005252 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 203275005253 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005254 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 203275005255 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 203275005256 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 203275005257 FMN binding site [chemical binding]; other site 203275005258 substrate binding site [chemical binding]; other site 203275005259 putative catalytic residue [active] 203275005260 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 203275005261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 203275005262 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 203275005263 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 203275005264 putative active site [active] 203275005265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275005266 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 203275005267 Cation efflux family; Region: Cation_efflux; cl00316 203275005268 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 203275005269 Ligand Binding Site [chemical binding]; other site 203275005270 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 203275005271 Domain of unknown function (DUF718); Region: DUF718; cl01281 203275005272 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 203275005273 DNA polymerase III subunit beta; Validated; Region: PRK05643 203275005274 putative DNA binding surface [nucleotide binding]; other site 203275005275 dimer interface [polypeptide binding]; other site 203275005276 beta-clamp/translesion DNA polymerase binding surface; other site 203275005277 beta-clamp/clamp loader binding surface; other site 203275005278 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 203275005279 active site 203275005280 catalytic site [active] 203275005281 substrate binding site [chemical binding]; other site 203275005282 exodeoxyribonuclease X; Provisional; Region: PRK07983 203275005283 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 203275005284 Flavoprotein; Region: Flavoprotein; cl08021 203275005285 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 203275005286 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 203275005287 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 203275005288 Walker A/P-loop; other site 203275005289 ATP binding site [chemical binding]; other site 203275005290 Q-loop/lid; other site 203275005291 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 203275005292 ABC transporter signature motif; other site 203275005293 Walker B; other site 203275005294 D-loop; other site 203275005295 H-loop/switch region; other site 203275005296 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 203275005297 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 203275005298 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 203275005299 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 203275005300 23S rRNA binding site [nucleotide binding]; other site 203275005301 ribosomal protein L20; Region: rpl20; CHL00068 203275005302 L21 binding site [polypeptide binding]; other site 203275005303 L13 binding site [polypeptide binding]; other site 203275005304 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 203275005305 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 203275005306 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 203275005307 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 203275005308 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 203275005309 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 203275005310 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 203275005311 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 203275005312 active site 203275005313 dimer interface [polypeptide binding]; other site 203275005314 motif 1; other site 203275005315 motif 2; other site 203275005316 motif 3; other site 203275005317 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 203275005318 anticodon binding site; other site 203275005319 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 203275005320 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 203275005321 metal binding site [ion binding]; metal-binding site 203275005322 dimer interface [polypeptide binding]; other site 203275005323 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 203275005324 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 203275005325 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 203275005326 active site 203275005327 dimer interface [polypeptide binding]; other site 203275005328 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 203275005329 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 203275005330 dimer interface [polypeptide binding]; other site 203275005331 active site 203275005332 metal binding site [ion binding]; metal-binding site 203275005333 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 203275005334 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 203275005335 ligand binding site [chemical binding]; other site 203275005336 flexible hinge region; other site 203275005337 Helix-turn-helix domains; Region: HTH; cl00088 203275005338 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 203275005339 beta-D-glucuronidase; Provisional; Region: PRK10150 203275005340 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275005341 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275005342 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275005343 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 203275005344 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 203275005345 motif II; other site 203275005346 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 203275005347 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 203275005348 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275005349 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 203275005350 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 203275005351 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 203275005352 FAD binding site [chemical binding]; other site 203275005353 multidrug efflux protein; Reviewed; Region: PRK01766 203275005354 MatE; Region: MatE; cl10513 203275005355 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005356 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005357 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005358 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005359 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005360 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 203275005361 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 203275005362 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 203275005363 active site 203275005364 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 203275005365 homodimer interface [polypeptide binding]; other site 203275005366 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 203275005367 putative active site [active] 203275005368 putative catalytic site [active] 203275005369 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275005370 recombinase A; Provisional; Region: recA; PRK09354 203275005371 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 203275005372 hexamer interface [polypeptide binding]; other site 203275005373 Walker A motif; other site 203275005374 ATP binding site [chemical binding]; other site 203275005375 Walker B motif; other site 203275005376 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 203275005377 catalytic triad [active] 203275005378 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 203275005379 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 203275005380 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 203275005381 active site 2 [active] 203275005382 dimer interface [polypeptide binding]; other site 203275005383 active site 1 [active] 203275005384 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 203275005385 Ligand binding site; other site 203275005386 Putative Catalytic site; other site 203275005387 DXD motif; other site 203275005388 Predicted exporter [General function prediction only]; Region: COG4258 203275005389 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 203275005390 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 203275005391 putative acyl-acceptor binding pocket; other site 203275005392 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 203275005393 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 203275005394 RHS Repeat; Region: RHS_repeat; cl11982 203275005395 RHS Repeat; Region: RHS_repeat; cl11982 203275005396 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 203275005397 RHS Repeat; Region: RHS_repeat; cl11982 203275005398 RHS Repeat; Region: RHS_repeat; cl11982 203275005399 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 203275005400 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 203275005401 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 203275005402 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 203275005403 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 203275005404 active site 203275005405 catalytic site [active] 203275005406 substrate binding site [chemical binding]; other site 203275005407 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005408 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005409 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005410 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005411 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005412 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005413 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 203275005414 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 203275005415 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005416 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 203275005417 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 203275005418 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 203275005419 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 203275005420 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 203275005421 active site 203275005422 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 203275005423 dimer interface [polypeptide binding]; other site 203275005424 substrate binding site [chemical binding]; other site 203275005425 catalytic residues [active] 203275005426 GSCFA family; Region: GSCFA; pfam08885 203275005427 Peptidase family M23; Region: Peptidase_M23; pfam01551 203275005428 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275005429 putative peptidoglycan binding site; other site 203275005430 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275005431 putative peptidoglycan binding site; other site 203275005432 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275005433 putative peptidoglycan binding site; other site 203275005434 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 203275005435 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 203275005436 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 203275005437 substrate binding site [chemical binding]; other site 203275005438 dimer interface [polypeptide binding]; other site 203275005439 catalytic triad [active] 203275005440 Sporulation related domain; Region: SPOR; cl10051 203275005441 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 203275005442 homodecamer interface [polypeptide binding]; other site 203275005443 GTP cyclohydrolase I; Provisional; Region: PLN03044 203275005444 active site 203275005445 putative catalytic site residues [active] 203275005446 zinc binding site [ion binding]; other site 203275005447 GTP-CH-I/GFRP interaction surface; other site 203275005448 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 203275005449 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275005450 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275005451 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 203275005452 DNA binding residues [nucleotide binding] 203275005453 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 203275005454 Peptidase family C69; Region: Peptidase_C69; pfam03577 203275005455 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275005456 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005457 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 203275005458 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 203275005459 N-terminal plug; other site 203275005460 ligand-binding site [chemical binding]; other site 203275005461 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 203275005462 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 203275005463 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 203275005464 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 203275005465 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 203275005466 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 203275005467 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 203275005468 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 203275005469 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 203275005470 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 203275005471 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 203275005472 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 203275005473 catalytic residues [active] 203275005474 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 203275005475 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 203275005476 Uncharacterized conserved protein [Function unknown]; Region: COG2461 203275005477 Family of unknown function (DUF438); Region: DUF438; pfam04282 203275005478 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 203275005479 Cupin domain; Region: Cupin_2; cl09118 203275005480 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005481 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005482 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005483 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005484 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005485 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 203275005486 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 203275005487 N-terminal plug; other site 203275005488 ligand-binding site [chemical binding]; other site 203275005489 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 203275005490 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 203275005491 dihydroorotase; Reviewed; Region: PRK09236 203275005492 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 203275005493 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 203275005494 active site 203275005495 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 203275005496 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 203275005497 Ligand binding site; other site 203275005498 Putative Catalytic site; other site 203275005499 DXD motif; other site 203275005500 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 203275005501 extended (e) SDRs; Region: SDR_e; cd08946 203275005502 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 203275005503 NAD(P) binding site [chemical binding]; other site 203275005504 active site 203275005505 substrate binding site [chemical binding]; other site 203275005506 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275005507 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275005508 putative peptidoglycan binding site; other site 203275005509 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 203275005510 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275005511 putative peptidoglycan binding site; other site 203275005512 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 203275005513 putative peptidoglycan binding site; other site 203275005514 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 203275005515 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 203275005516 ligand binding site [chemical binding]; other site 203275005517 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 203275005518 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 203275005519 N-acetyl-D-glucosamine binding site [chemical binding]; other site 203275005520 catalytic residue [active] 203275005521 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 203275005522 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 203275005523 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 203275005524 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 203275005525 Uncharacterized conserved protein [Function unknown]; Region: COG1739 203275005526 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 203275005527 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 203275005528 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 203275005529 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 203275005530 active site 203275005531 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 203275005532 dimer interface [polypeptide binding]; other site 203275005533 Alkaline phosphatase homologues; Region: alkPPc; smart00098 203275005534 active site 203275005535 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 203275005536 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 203275005537 active site 203275005538 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005539 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 203275005540 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005541 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005542 Peptidase C13 family; Region: Peptidase_C13; cl02159 203275005543 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005544 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 203275005545 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005546 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 203275005547 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275005548 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275005549 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275005550 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 203275005551 transcriptional activator RfaH; Region: RfaH; TIGR01955 203275005552 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 203275005553 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 203275005554 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 203275005555 active site 203275005556 catalytic site [active] 203275005557 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 203275005558 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 203275005559 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 203275005560 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 203275005561 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 203275005562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275005563 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 203275005564 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 203275005565 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 203275005566 dimer interface [polypeptide binding]; other site 203275005567 anticodon binding site; other site 203275005568 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 203275005569 homodimer interface [polypeptide binding]; other site 203275005570 motif 1; other site 203275005571 active site 203275005572 motif 2; other site 203275005573 GAD domain; Region: GAD; pfam02938 203275005574 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 203275005575 motif 3; other site 203275005576 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 203275005577 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 203275005578 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 203275005579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 203275005580 Putative zinc ribbon domain; Region: DUF164; pfam02591 203275005581 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 203275005582 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 203275005583 Ligand Binding Site [chemical binding]; other site 203275005584 B3/4 domain; Region: B3_4; cl11458 203275005585 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 203275005586 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 203275005587 transcription termination factor Rho; Provisional; Region: PRK12608 203275005588 RNA binding site [nucleotide binding]; other site 203275005589 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 203275005590 multimer interface [polypeptide binding]; other site 203275005591 Walker A motif; other site 203275005592 ATP binding site [chemical binding]; other site 203275005593 Walker B motif; other site 203275005594 peroxiredoxin; Region: AhpC; TIGR03137 203275005595 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 203275005596 dimer interface [polypeptide binding]; other site 203275005597 decamer (pentamer of dimers) interface [polypeptide binding]; other site 203275005598 catalytic triad [active] 203275005599 peroxidatic and resolving cysteines [active] 203275005600 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 203275005601 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 203275005602 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 203275005603 DNA binding residues [nucleotide binding] 203275005604 dimerization interface [polypeptide binding]; other site 203275005605 Uncharacterized conserved protein [Function unknown]; Region: COG2966 203275005606 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 203275005607 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 203275005608 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275005609 Outer membrane protein Omp28; Region: Omp28; pfam11551 203275005610 META domain; Region: META; cl01245 203275005611 pyruvate carboxylase subunit B; Validated; Region: PRK09282 203275005612 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 203275005613 active site 203275005614 catalytic residues [active] 203275005615 metal binding site [ion binding]; metal-binding site 203275005616 homodimer binding site [polypeptide binding]; other site 203275005617 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 203275005618 carboxyltransferase (CT) interaction site; other site 203275005619 biotinylation site [posttranslational modification]; other site 203275005620 L-lactate permease; Region: Lactate_perm; cl00701 203275005621 glycolate transporter; Provisional; Region: PRK09695 203275005622 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 203275005623 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 203275005624 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 203275005625 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 203275005626 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 203275005627 Cysteine-rich domain; Region: CCG; pfam02754 203275005628 Cysteine-rich domain; Region: CCG; pfam02754 203275005629 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 203275005630 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 203275005631 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_22; cd04681 203275005632 nudix motif; other site 203275005633 ACT domain-containing protein [General function prediction only]; Region: COG4747 203275005634 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 203275005635 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 203275005636 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 203275005637 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 203275005638 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 203275005639 Transglycosylase; Region: Transgly; cl07896 203275005640 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 203275005641 GldH lipoprotein; Region: GldH_lipo; cl11905 203275005642 PSP1 C-terminal conserved region; Region: PSP1; cl00770 203275005643 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 203275005644 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 203275005645 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 203275005646 substrate-cofactor binding pocket; other site 203275005647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275005648 catalytic residue [active] 203275005649 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 203275005650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275005651 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 203275005652 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 203275005653 metal binding site [ion binding]; metal-binding site 203275005654 putative dimer interface [polypeptide binding]; other site 203275005655 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 203275005656 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 203275005657 active site 203275005658 putative substrate binding pocket [chemical binding]; other site 203275005659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275005660 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 203275005661 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 203275005662 Proline dehydrogenase; Region: Pro_dh; cl03282 203275005663 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 203275005664 putative active site [active] 203275005665 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005666 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005667 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005668 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275005669 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005670 Sporulation related domain; Region: SPOR; cl10051 203275005671 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 203275005672 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 203275005673 heterodimer interface [polypeptide binding]; other site 203275005674 substrate interaction site [chemical binding]; other site 203275005675 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 203275005676 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 203275005677 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 203275005678 active site 203275005679 substrate binding site [chemical binding]; other site 203275005680 coenzyme B12 binding site [chemical binding]; other site 203275005681 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 203275005682 B12 binding site [chemical binding]; other site 203275005683 cobalt ligand [ion binding]; other site 203275005684 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 203275005685 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275005686 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275005687 ABC transporter; Region: ABC_tran_2; pfam12848 203275005688 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275005689 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 203275005690 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 203275005691 Ligand binding site; other site 203275005692 oligomer interface; other site 203275005693 membrane protein insertase; Provisional; Region: PRK01318 203275005694 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 203275005695 CTP synthetase; Validated; Region: pyrG; PRK05380 203275005696 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 203275005697 Catalytic site [active] 203275005698 active site 203275005699 UTP binding site [chemical binding]; other site 203275005700 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 203275005701 active site 203275005702 putative oxyanion hole; other site 203275005703 catalytic triad [active] 203275005704 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 203275005705 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess...; Region: ABC_MutS-like; cd03283 203275005706 Walker A/P-loop; other site 203275005707 ATP binding site [chemical binding]; other site 203275005708 Q-loop/lid; other site 203275005709 ABC transporter signature motif; other site 203275005710 Walker B; other site 203275005711 D-loop; other site 203275005712 H-loop/switch region; other site 203275005713 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 203275005714 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 203275005715 ferredoxin; Validated; Region: PRK07118 203275005716 4Fe-4S binding domain; Region: Fer4; cl02805 203275005717 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 203275005718 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 203275005719 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 203275005720 SLBB domain; Region: SLBB; pfam10531 203275005721 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 203275005722 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 203275005723 FMN-binding domain; Region: FMN_bind; cl01081 203275005724 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 203275005725 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 203275005726 TRL-like protein family; Region: TRL; pfam13146 203275005727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 203275005728 Transposase; Region: DDE_Tnp_ISL3; pfam01610 203275005729 Rhomboid family; Region: Rhomboid; cl11446 203275005730 Rhomboid family; Region: Rhomboid; cl11446 203275005731 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 203275005732 putative catalytic site [active] 203275005733 putative metal binding site [ion binding]; other site 203275005734 putative phosphate binding site [ion binding]; other site 203275005735 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 203275005736 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 203275005737 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 203275005738 active site 203275005739 catalytic residues [active] 203275005740 Sulfatase; Region: Sulfatase; cl10460 203275005741 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 203275005742 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 203275005743 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 203275005744 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 203275005745 Precorrin-8X methylmutase; Region: CbiC; pfam02570 203275005746 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 203275005747 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 203275005748 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 203275005749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275005750 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 203275005751 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 203275005752 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 203275005753 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 203275005754 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 203275005755 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 203275005756 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 203275005757 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 203275005758 CbiD; Region: CbiD; cl00828 203275005759 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 203275005760 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 203275005761 active site 203275005762 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 203275005763 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275005764 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 203275005765 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 203275005766 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 203275005767 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 203275005768 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275005769 Helix-turn-helix domain; Region: HTH_18; pfam12833 203275005770 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275005771 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 203275005772 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 203275005773 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 203275005774 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 203275005775 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 203275005776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275005777 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275005778 FecR protein; Region: FecR; pfam04773 203275005779 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275005780 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005781 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005782 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005783 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005784 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005785 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 203275005786 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 203275005787 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 203275005788 nudix motif; other site 203275005789 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 203275005790 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 203275005791 D-xylulose kinases, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_2; cd07810 203275005792 putative N- and C-terminal domain interface [polypeptide binding]; other site 203275005793 putative active site [active] 203275005794 catalytic site [active] 203275005795 metal binding site [ion binding]; metal-binding site 203275005796 putative xylulose binding site [chemical binding]; other site 203275005797 putative ATP binding site [chemical binding]; other site 203275005798 putative homodimer interface [polypeptide binding]; other site 203275005799 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 203275005800 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 203275005801 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 203275005802 putative substrate translocation pore; other site 203275005803 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275005804 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275005805 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275005806 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005807 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005808 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275005809 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275005810 SusD family; Region: SusD; pfam07980 203275005811 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 203275005812 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 203275005813 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 203275005814 active site 203275005815 metal binding site [ion binding]; metal-binding site 203275005816 SusE outer membrane protein; Region: SusE; pfam14292 203275005817 Peptidase C10 family; Region: Peptidase_C10; pfam01640 203275005818 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 203275005819 HicB family; Region: HicB; pfam05534 203275005820 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 203275005821 nucleotide binding site [chemical binding]; other site 203275005822 N-acetyl-L-glutamate binding site [chemical binding]; other site 203275005823 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 203275005824 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 203275005825 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 203275005826 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 203275005827 ATP binding site [chemical binding]; other site 203275005828 Mg++ binding site [ion binding]; other site 203275005829 motif III; other site 203275005830 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 203275005831 nucleotide binding region [chemical binding]; other site 203275005832 ATP-binding site [chemical binding]; other site 203275005833 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 203275005834 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 203275005835 substrate binding pocket [chemical binding]; other site 203275005836 membrane-bound complex binding site; other site 203275005837 hinge residues; other site 203275005838 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 203275005839 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 203275005840 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 203275005841 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 203275005842 TPP-binding site [chemical binding]; other site 203275005843 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 203275005844 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 203275005845 dimer interface [polypeptide binding]; other site 203275005846 PYR/PP interface [polypeptide binding]; other site 203275005847 TPP binding site [chemical binding]; other site 203275005848 substrate binding site [chemical binding]; other site 203275005849 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 203275005850 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 203275005851 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 203275005852 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 203275005853 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 203275005854 Interferon-induced transmembrane protein; Region: CD225; pfam04505 203275005855 Domain of unknown function (DUF368); Region: DUF368; cl00893 203275005856 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 203275005857 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 203275005858 TPR motif; other site 203275005859 binding surface 203275005860 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 203275005861 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275005862 active site 203275005863 HIGH motif; other site 203275005864 nucleotide binding site [chemical binding]; other site 203275005865 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 203275005866 KMSKS motif; other site 203275005867 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 203275005868 thiamine-monophosphate kinase; Region: thiL; TIGR01379 203275005869 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 203275005870 ATP binding site [chemical binding]; other site 203275005871 dimerization interface [polypeptide binding]; other site 203275005872 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 203275005873 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 203275005874 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 203275005875 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 203275005876 tandem repeat interface [polypeptide binding]; other site 203275005877 oligomer interface [polypeptide binding]; other site 203275005878 active site residues [active] 203275005879 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 203275005880 tandem repeat interface [polypeptide binding]; other site 203275005881 oligomer interface [polypeptide binding]; other site 203275005882 active site residues [active] 203275005883 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 203275005884 MatE; Region: MatE; cl10513 203275005885 MatE; Region: MatE; cl10513 203275005886 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 203275005887 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275005888 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275005889 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275005890 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 203275005891 dimer interface [polypeptide binding]; other site 203275005892 phosphorylation site [posttranslational modification] 203275005893 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 203275005894 ATP binding site [chemical binding]; other site 203275005895 Mg2+ binding site [ion binding]; other site 203275005896 G-X-G motif; other site 203275005897 Response regulator receiver domain; Region: Response_reg; pfam00072 203275005898 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 203275005899 active site 203275005900 phosphorylation site [posttranslational modification] 203275005901 intermolecular recognition site; other site 203275005902 dimerization interface [polypeptide binding]; other site 203275005903 Helix-turn-helix domain; Region: HTH_18; pfam12833 203275005904 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275005905 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 203275005906 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275005907 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 203275005908 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 203275005909 Interdomain contacts; other site 203275005910 Cytokine receptor motif; other site 203275005911 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; cl00065 203275005912 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005913 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005914 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 203275005915 Interdomain contacts; other site 203275005916 Cytokine receptor motif; other site 203275005917 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; cl00065 203275005918 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; cl00065 203275005919 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; cl00065 203275005920 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005921 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005922 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005923 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005924 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005925 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 203275005926 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 203275005927 Interdomain contacts; other site 203275005928 Cytokine receptor motif; other site 203275005929 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 203275005930 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; cl00065 203275005931 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005932 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 203275005933 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005934 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275005935 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275005936 glycine dehydrogenase; Provisional; Region: PRK05367 203275005937 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 203275005938 tetramer interface [polypeptide binding]; other site 203275005939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275005940 catalytic residue [active] 203275005941 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 203275005942 tetramer interface [polypeptide binding]; other site 203275005943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275005944 catalytic residue [active] 203275005945 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 203275005946 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 203275005947 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 203275005948 DNA gyrase subunit A; Validated; Region: PRK05560 203275005949 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 203275005950 CAP-like domain; other site 203275005951 active site 203275005952 primary dimer interface [polypeptide binding]; other site 203275005953 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 203275005954 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 203275005955 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 203275005956 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 203275005957 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 203275005958 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 203275005959 binding surface 203275005960 TPR motif; other site 203275005961 TPR repeat; Region: TPR_11; pfam13414 203275005962 TPR repeat; Region: TPR_11; pfam13414 203275005963 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 203275005964 binding surface 203275005965 TPR motif; other site 203275005966 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 203275005967 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 203275005968 Ligand Binding Site [chemical binding]; other site 203275005969 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 203275005970 Ligand Binding Site [chemical binding]; other site 203275005971 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 203275005972 active site 203275005973 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 203275005974 binding surface 203275005975 Tetratricopeptide repeat; Region: TPR_16; pfam13432 203275005976 TPR motif; other site 203275005977 Bacterial SH3 domain; Region: SH3_3; cl02551 203275005978 Oxygen tolerance; Region: BatD; pfam13584 203275005979 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 203275005980 binding surface 203275005981 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 203275005982 TPR motif; other site 203275005983 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 203275005984 metal ion-dependent adhesion site (MIDAS); other site 203275005985 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 203275005986 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 203275005987 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 203275005988 metal ion-dependent adhesion site (MIDAS); other site 203275005989 MoxR-like ATPases [General function prediction only]; Region: COG0714 203275005990 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 203275005991 Walker A motif; other site 203275005992 ATP binding site [chemical binding]; other site 203275005993 Walker B motif; other site 203275005994 arginine finger; other site 203275005995 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 203275005996 IHF dimer interface [polypeptide binding]; other site 203275005997 IHF - DNA interface [nucleotide binding]; other site 203275005998 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 203275005999 IHF dimer interface [polypeptide binding]; other site 203275006000 IHF - DNA interface [nucleotide binding]; other site 203275006001 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 203275006002 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 203275006003 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 203275006004 FeS/SAM binding site; other site 203275006005 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 203275006006 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 203275006007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006008 META domain; Region: META; cl01245 203275006009 YceG-like family; Region: YceG; pfam02618 203275006010 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 203275006011 dimerization interface [polypeptide binding]; other site 203275006012 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 203275006013 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 203275006014 dimer interface [polypeptide binding]; other site 203275006015 PYR/PP interface [polypeptide binding]; other site 203275006016 TPP binding site [chemical binding]; other site 203275006017 substrate binding site [chemical binding]; other site 203275006018 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 203275006019 TPP-binding site; other site 203275006020 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 203275006021 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 203275006022 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 203275006023 DNA polymerase III, delta subunit; Region: holA; TIGR01128 203275006024 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 203275006025 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 203275006026 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 203275006027 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 203275006028 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275006029 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 203275006030 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 203275006031 homodimer interface [polypeptide binding]; other site 203275006032 oligonucleotide binding site [chemical binding]; other site 203275006033 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 203275006034 IHF - DNA interface [nucleotide binding]; other site 203275006035 IHF dimer interface [polypeptide binding]; other site 203275006036 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 203275006037 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 203275006038 minor groove reading motif; other site 203275006039 helix-hairpin-helix signature motif; other site 203275006040 substrate binding pocket [chemical binding]; other site 203275006041 active site 203275006042 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 203275006043 DNA binding and oxoG recognition site [nucleotide binding] 203275006044 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 203275006045 dimer interface [polypeptide binding]; other site 203275006046 ssDNA binding site [nucleotide binding]; other site 203275006047 tetramer (dimer of dimers) interface [polypeptide binding]; other site 203275006048 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 203275006049 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 203275006050 Transporter associated domain; Region: CorC_HlyC; cl08393 203275006051 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 203275006052 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 203275006053 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 203275006054 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275006055 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275006056 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275006057 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275006058 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275006059 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 203275006060 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 203275006061 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 203275006062 DNA interaction; other site 203275006063 Metal-binding active site; metal-binding site 203275006064 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275006065 Secretin and TonB N terminus short domain; Region: STN; cl06624 203275006066 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275006067 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006068 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006069 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006070 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006071 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 203275006072 FecR protein; Region: FecR; pfam04773 203275006073 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275006074 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275006075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 203275006076 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 203275006077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006078 NAD(P) binding site [chemical binding]; other site 203275006079 active site 203275006080 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 203275006081 active site 203275006082 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 203275006083 active site 203275006084 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 203275006085 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 203275006086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006087 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 203275006088 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 203275006089 peptidase T; Region: peptidase-T; TIGR01882 203275006090 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 203275006091 metal binding site [ion binding]; metal-binding site 203275006092 dimer interface [polypeptide binding]; other site 203275006093 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 203275006094 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 203275006095 Ligand binding site; other site 203275006096 Putative Catalytic site; other site 203275006097 DXD motif; other site 203275006098 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 203275006099 lipoprotein signal peptidase; Provisional; Region: PRK14787 203275006100 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 203275006101 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 203275006102 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275006103 active site 203275006104 HIGH motif; other site 203275006105 nucleotide binding site [chemical binding]; other site 203275006106 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 203275006107 active site 203275006108 KMSKS motif; other site 203275006109 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 203275006110 tRNA binding surface [nucleotide binding]; other site 203275006111 anticodon binding site; other site 203275006112 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 203275006113 Fic family protein [Function unknown]; Region: COG3177 203275006114 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 203275006115 Fic/DOC family; Region: Fic; cl00960 203275006116 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 203275006117 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 203275006118 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 203275006119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 203275006120 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 203275006121 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 203275006122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006123 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 203275006124 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 203275006125 Substrate binding site; other site 203275006126 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 203275006127 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 203275006128 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 203275006129 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 203275006130 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 203275006131 shikimate binding site; other site 203275006132 NAD(P) binding site [chemical binding]; other site 203275006133 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 203275006134 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 203275006135 S-adenosylmethionine binding site [chemical binding]; other site 203275006136 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 203275006137 ATP binding site [chemical binding]; other site 203275006138 active site 203275006139 substrate binding site [chemical binding]; other site 203275006140 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 203275006141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006142 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 203275006143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006144 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 203275006145 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 203275006146 proline aminopeptidase P II; Provisional; Region: PRK10879 203275006147 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 203275006148 active site 203275006149 Repair protein; Region: Repair_PSII; cl01535 203275006150 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 203275006151 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275006152 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275006153 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275006154 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006155 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 203275006156 binding surface 203275006157 TPR repeat; Region: TPR_11; pfam13414 203275006158 TPR motif; other site 203275006159 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 203275006160 binding surface 203275006161 TPR motif; other site 203275006162 Tetratricopeptide repeat; Region: TPR_12; pfam13424 203275006163 GTP-binding protein LepA; Provisional; Region: PRK05433 203275006164 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 203275006165 G1 box; other site 203275006166 putative GEF interaction site [polypeptide binding]; other site 203275006167 GTP/Mg2+ binding site [chemical binding]; other site 203275006168 Switch I region; other site 203275006169 G2 box; other site 203275006170 G3 box; other site 203275006171 Switch II region; other site 203275006172 G4 box; other site 203275006173 G5 box; other site 203275006174 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 203275006175 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 203275006176 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 203275006177 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275006178 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006179 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006180 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006181 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275006182 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 203275006183 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 203275006184 substrate binding pocket [chemical binding]; other site 203275006185 membrane-bound complex binding site; other site 203275006186 hinge residues; other site 203275006187 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 203275006188 N-acetyl-D-glucosamine binding site [chemical binding]; other site 203275006189 catalytic residue [active] 203275006190 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 203275006191 TRAM domain; Region: TRAM; cl01282 203275006192 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 203275006193 S-adenosylmethionine binding site [chemical binding]; other site 203275006194 pyruvate phosphate dikinase; Provisional; Region: PRK09279 203275006195 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 203275006196 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 203275006197 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 203275006198 LytTr DNA-binding domain; Region: LytTR; cl04498 203275006199 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 203275006200 phosphopeptide binding site; other site 203275006201 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 203275006202 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 203275006203 phosphopeptide binding site; other site 203275006204 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 203275006205 Catalytic domain of Protein Kinases; Region: PKc; cd00180 203275006206 active site 203275006207 ATP binding site [chemical binding]; other site 203275006208 substrate binding site [chemical binding]; other site 203275006209 activation loop (A-loop); other site 203275006210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3055 203275006211 kelch-like protein; Provisional; Region: PHA03098 203275006212 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275006213 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006214 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006215 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006216 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275006217 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275006218 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 203275006219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 203275006220 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275006221 Coenzyme A binding pocket [chemical binding]; other site 203275006222 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 203275006223 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 203275006224 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 203275006225 substrate-cofactor binding pocket; other site 203275006226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275006227 catalytic residue [active] 203275006228 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 203275006229 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275006230 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 203275006231 DNA binding residues [nucleotide binding] 203275006232 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275006233 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 203275006234 SmpB-tmRNA interface; other site 203275006235 Nucleoside recognition; Region: Gate; cl00486 203275006236 hypothetical protein; Region: PHA00684 203275006237 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275006238 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 203275006239 dimer interface [polypeptide binding]; other site 203275006240 substrate binding site [chemical binding]; other site 203275006241 metal binding sites [ion binding]; metal-binding site 203275006242 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 203275006243 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 203275006244 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 203275006245 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 203275006246 ATP binding site [chemical binding]; other site 203275006247 Mg2+ binding site [ion binding]; other site 203275006248 G-X-G motif; other site 203275006249 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 203275006250 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 203275006251 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 203275006252 DNA binding residues [nucleotide binding] 203275006253 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 203275006254 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 203275006255 Domain of unknown function DUF59; Region: DUF59; cl00941 203275006256 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 203275006257 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275006258 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 203275006259 protein binding site [polypeptide binding]; other site 203275006260 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 203275006261 Catalytic dyad [active] 203275006262 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 203275006263 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 203275006264 substrate binding site [chemical binding]; other site 203275006265 ATP binding site [chemical binding]; other site 203275006266 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006267 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006268 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 203275006269 Sulfatase; Region: Sulfatase; cl10460 203275006270 Preprotein translocase SecG subunit; Region: SecG; cl09123 203275006271 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 203275006272 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 203275006273 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 203275006274 Walker A motif; other site 203275006275 ATP binding site [chemical binding]; other site 203275006276 Walker B motif; other site 203275006277 arginine finger; other site 203275006278 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 203275006279 Helix-turn-helix domains; Region: HTH; cl00088 203275006280 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 203275006281 putative acyl-acceptor binding pocket; other site 203275006282 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 203275006283 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 203275006284 classical (c) SDRs; Region: SDR_c; cd05233 203275006285 NAD(P) binding site [chemical binding]; other site 203275006286 active site 203275006287 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 203275006288 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 203275006289 active site 203275006290 nucleotide binding site [chemical binding]; other site 203275006291 HIGH motif; other site 203275006292 KMSKS motif; other site 203275006293 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 203275006294 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 203275006295 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 203275006296 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 203275006297 FeS/SAM binding site; other site 203275006298 SurA N-terminal domain; Region: SurA_N_3; cl07813 203275006299 PPIC-type PPIASE domain; Region: Rotamase; cl08278 203275006300 PPIC-type PPIASE domain; Region: Rotamase; cl08278 203275006301 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 203275006302 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 203275006303 binding surface 203275006304 TPR motif; other site 203275006305 TPR repeat; Region: TPR_11; pfam13414 203275006306 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275006307 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 203275006308 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 203275006309 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 203275006310 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 203275006311 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 203275006312 nucleotide binding region [chemical binding]; other site 203275006313 ATP-binding site [chemical binding]; other site 203275006314 SEC-C motif; Region: SEC-C; pfam02810 203275006315 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 203275006316 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 203275006317 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 203275006318 dimer interface [polypeptide binding]; other site 203275006319 phosphorylation site [posttranslational modification] 203275006320 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 203275006321 ATP binding site [chemical binding]; other site 203275006322 Mg2+ binding site [ion binding]; other site 203275006323 G-X-G motif; other site 203275006324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 203275006325 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 203275006326 active site 203275006327 phosphorylation site [posttranslational modification] 203275006328 intermolecular recognition site; other site 203275006329 dimerization interface [polypeptide binding]; other site 203275006330 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 203275006331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275006332 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 203275006333 TPR motif; other site 203275006334 binding surface 203275006335 TPR repeat; Region: TPR_11; pfam13414 203275006336 TPR repeat; Region: TPR_11; pfam13414 203275006337 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 203275006338 binding surface 203275006339 TPR motif; other site 203275006340 Tetratricopeptide repeat; Region: TPR_16; pfam13432 203275006341 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 203275006342 binding surface 203275006343 TPR motif; other site 203275006344 TPR repeat; Region: TPR_11; pfam13414 203275006345 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 203275006346 binding surface 203275006347 TPR motif; other site 203275006348 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 203275006349 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 203275006350 TPR motif; other site 203275006351 binding surface 203275006352 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 203275006353 TPR motif; other site 203275006354 Tetratricopeptide repeat; Region: TPR_16; pfam13432 203275006355 binding surface 203275006356 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 203275006357 active site 203275006358 catalytic residues [active] 203275006359 metal binding site [ion binding]; metal-binding site 203275006360 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 203275006361 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 203275006362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006363 Bacterial sugar transferase; Region: Bac_transf; cl00939 203275006364 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275006365 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 203275006366 signal recognition particle protein; Provisional; Region: PRK10867 203275006367 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 203275006368 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 203275006369 P loop; other site 203275006370 GTP binding site [chemical binding]; other site 203275006371 Signal peptide binding domain; Region: SRP_SPB; pfam02978 203275006372 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 203275006373 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 203275006374 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 203275006375 homodimer interface [polypeptide binding]; other site 203275006376 NADP binding site [chemical binding]; other site 203275006377 substrate binding site [chemical binding]; other site 203275006378 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 203275006379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 203275006380 FtsX-like permease family; Region: FtsX; cl15850 203275006381 aspartate aminotransferase; Provisional; Region: PRK07568 203275006382 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 203275006383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275006384 homodimer interface [polypeptide binding]; other site 203275006385 catalytic residue [active] 203275006386 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 203275006387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006388 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 203275006389 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 203275006390 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 203275006391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275006392 homodimer interface [polypeptide binding]; other site 203275006393 catalytic residue [active] 203275006394 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 203275006395 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 203275006396 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 203275006397 homodimer interface [polypeptide binding]; other site 203275006398 substrate-cofactor binding pocket; other site 203275006399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 203275006400 catalytic residue [active] 203275006401 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 203275006402 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 203275006403 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 203275006404 Walker A/P-loop; other site 203275006405 ATP binding site [chemical binding]; other site 203275006406 Q-loop/lid; other site 203275006407 ABC transporter signature motif; other site 203275006408 Walker B; other site 203275006409 D-loop; other site 203275006410 H-loop/switch region; other site 203275006411 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 203275006412 DNA primase, catalytic core; Region: dnaG; TIGR01391 203275006413 CHC2 zinc finger; Region: zf-CHC2; cl15369 203275006414 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 203275006415 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 203275006416 active site 203275006417 metal binding site [ion binding]; metal-binding site 203275006418 interdomain interaction site; other site 203275006419 O-Antigen ligase; Region: Wzy_C; cl04850 203275006420 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 203275006421 binding surface 203275006422 TPR motif; other site 203275006423 Septum formation initiator; Region: DivIC; cl11433 203275006424 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 203275006425 Found in ATP-dependent protease La (LON); Region: LON; smart00464 203275006426 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 203275006427 Walker A motif; other site 203275006428 ATP binding site [chemical binding]; other site 203275006429 Walker B motif; other site 203275006430 arginine finger; other site 203275006431 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 203275006432 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 203275006433 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275006434 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 203275006435 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 203275006436 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 203275006437 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 203275006438 Maf-like protein; Region: Maf; pfam02545 203275006439 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 203275006440 active site 203275006441 dimer interface [polypeptide binding]; other site 203275006442 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 203275006443 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 203275006444 NADP binding site [chemical binding]; other site 203275006445 active site 203275006446 putative substrate binding site [chemical binding]; other site 203275006447 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 203275006448 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 203275006449 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 203275006450 NADP-binding site; other site 203275006451 homotetramer interface [polypeptide binding]; other site 203275006452 substrate binding site [chemical binding]; other site 203275006453 homodimer interface [polypeptide binding]; other site 203275006454 active site 203275006455 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 203275006456 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 203275006457 5S rRNA interface [nucleotide binding]; other site 203275006458 CTC domain interface [polypeptide binding]; other site 203275006459 L16 interface [polypeptide binding]; other site 203275006460 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 203275006461 putative active site [active] 203275006462 catalytic residue [active] 203275006463 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 203275006464 RNA binding surface [nucleotide binding]; other site 203275006465 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006466 Chromate transporter; Region: Chromate_transp; pfam02417 203275006467 Chromate transporter; Region: Chromate_transp; pfam02417 203275006468 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 203275006469 DHH family; Region: DHH; pfam01368 203275006470 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275006471 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 203275006472 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 203275006473 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 203275006474 Catalytic site [active] 203275006475 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 203275006476 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 203275006477 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 203275006478 Walker A/P-loop; other site 203275006479 ATP binding site [chemical binding]; other site 203275006480 Q-loop/lid; other site 203275006481 ABC transporter signature motif; other site 203275006482 Walker B; other site 203275006483 D-loop; other site 203275006484 H-loop/switch region; other site 203275006485 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 203275006486 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275006487 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 203275006488 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 203275006489 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 203275006490 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 203275006491 ABC-2 type transporter; Region: ABC2_membrane; cl11417 203275006492 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 203275006493 ABC-2 type transporter; Region: ABC2_membrane; cl11417 203275006494 UbiA prenyltransferase family; Region: UbiA; cl00337 203275006495 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275006496 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006497 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006498 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006499 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006500 putative ybhL leader 203275006501 starch binding outer membrane protein SusD; Region: SusD; cd08977 203275006502 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 203275006503 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 203275006504 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 203275006505 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 203275006506 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 203275006507 reactive center loop; other site 203275006508 DJ-1 family protein; Region: not_thiJ; TIGR01383 203275006509 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 203275006510 conserved cys residue [active] 203275006511 Gram-negative bacterial tonB protein; Region: TonB; cl10048 203275006512 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 203275006513 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 203275006514 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 203275006515 active site 203275006516 hydrophilic channel; other site 203275006517 dimerization interface [polypeptide binding]; other site 203275006518 catalytic residues [active] 203275006519 active site lid [active] 203275006520 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 203275006521 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 203275006522 Protein of unknown function, DUF481; Region: DUF481; cl01213 203275006523 Transposase domain (DUF772); Region: DUF772; cl15789 203275006524 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275006525 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 203275006526 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 203275006527 dimer interface [polypeptide binding]; other site 203275006528 PYR/PP interface [polypeptide binding]; other site 203275006529 TPP binding site [chemical binding]; other site 203275006530 substrate binding site [chemical binding]; other site 203275006531 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 203275006532 Domain of unknown function; Region: EKR; cl11037 203275006533 4Fe-4S binding domain; Region: Fer4; cl02805 203275006534 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 203275006535 TPP-binding site [chemical binding]; other site 203275006536 dimer interface [polypeptide binding]; other site 203275006537 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275006538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006539 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 203275006540 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 203275006541 homodimer interface [polypeptide binding]; other site 203275006542 substrate-cofactor binding pocket; other site 203275006543 catalytic residue [active] 203275006544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 203275006545 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 203275006546 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 203275006547 active site 203275006548 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 203275006549 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006550 putative transporter; Validated; Region: PRK03818 203275006551 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 203275006552 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 203275006553 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 203275006554 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 203275006555 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 203275006556 active site 203275006557 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 203275006558 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 203275006559 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 203275006560 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 203275006561 motif II; other site 203275006562 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 203275006563 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 203275006564 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 203275006565 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 203275006566 Protein export membrane protein; Region: SecD_SecF; cl14618 203275006567 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 203275006568 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 203275006569 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 203275006570 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 203275006571 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 203275006572 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 203275006573 Bifunctional nuclease; Region: DNase-RNase; cl00553 203275006574 UvrB/uvrC motif; Region: UVR; pfam02151 203275006575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 203275006576 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 203275006577 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 203275006578 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 203275006579 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 203275006580 putative catalytic residues [active] 203275006581 nucleotide binding site [chemical binding]; other site 203275006582 aspartate binding site [chemical binding]; other site 203275006583 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 203275006584 dimer interface [polypeptide binding]; other site 203275006585 putative threonine allosteric regulatory site; other site 203275006586 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 203275006587 putative threonine allosteric regulatory site; other site 203275006588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006589 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 203275006590 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 203275006591 Sulfatase; Region: Sulfatase; cl10460 203275006592 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 203275006593 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 203275006594 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 203275006595 active site 203275006596 trimer interface [polypeptide binding]; other site 203275006597 allosteric site; other site 203275006598 active site lid [active] 203275006599 hexamer (dimer of trimers) interface [polypeptide binding]; other site 203275006600 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 203275006601 primosome assembly protein PriA; Validated; Region: PRK05580 203275006602 primosome assembly protein PriA; Validated; Region: PRK05580 203275006603 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 203275006604 ATP binding site [chemical binding]; other site 203275006605 putative Mg++ binding site [ion binding]; other site 203275006606 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 203275006607 ATP-binding site [chemical binding]; other site 203275006608 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 203275006609 Protein of unknown function (DUF454); Region: DUF454; cl01063 203275006610 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 203275006611 metal binding site [ion binding]; metal-binding site 203275006612 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 203275006613 putative FMN binding site [chemical binding]; other site 203275006614 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 203275006615 AMP-binding enzyme; Region: AMP-binding; cl15778 203275006616 Integrase core domain; Region: rve; cl01316 203275006617 Integrase core domain; Region: rve_3; cl15866 203275006618 Transposase domain (DUF772); Region: DUF772; cl15789 203275006619 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275006620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006623 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 203275006624 Helix-turn-helix domains; Region: HTH; cl00088 203275006625 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 203275006626 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 203275006627 dimer interface [polypeptide binding]; other site 203275006628 active site 203275006629 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 203275006630 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 203275006631 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 203275006632 AMP-binding enzyme; Region: AMP-binding; cl15778 203275006633 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 203275006634 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 203275006635 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 203275006636 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 203275006637 active site 203275006638 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 203275006639 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 203275006640 substrate binding site [chemical binding]; other site 203275006641 oxyanion hole (OAH) forming residues; other site 203275006642 trimer interface [polypeptide binding]; other site 203275006643 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 203275006644 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 203275006645 dimer interface [polypeptide binding]; other site 203275006646 tetramer interface [polypeptide binding]; other site 203275006647 PYR/PP interface [polypeptide binding]; other site 203275006648 TPP binding site [chemical binding]; other site 203275006649 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 203275006650 TPP-binding site; other site 203275006651 chorismate binding enzyme; Region: Chorismate_bind; cl10555 203275006652 Divergent AAA domain; Region: AAA_4; pfam04326 203275006653 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 203275006654 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275006655 DNA binding residues [nucleotide binding] 203275006656 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275006657 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006658 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 203275006659 DNA binding residues [nucleotide binding] 203275006660 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 203275006661 active site 203275006662 metal binding site [ion binding]; metal-binding site 203275006663 interdomain interaction site; other site 203275006664 AAA domain; Region: AAA_25; pfam13481 203275006665 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006666 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006667 Radical SAM superfamily; Region: Radical_SAM; pfam04055 203275006668 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 203275006669 FeS/SAM binding site; other site 203275006670 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 203275006671 YWFCY protein; Region: YWFCY; pfam14293 203275006672 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 203275006673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006674 Walker A motif; other site 203275006675 ATP binding site [chemical binding]; other site 203275006676 Walker B motif; other site 203275006677 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 203275006678 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 203275006679 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 203275006680 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 203275006681 Conjugative transposon protein TraO; Region: TraO; pfam10626 203275006682 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 203275006683 Bacterial PH domain; Region: DUF304; cl01348 203275006684 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 203275006685 S-adenosylmethionine binding site [chemical binding]; other site 203275006686 Phospholipid methyltransferase; Region: PEMT; cl00763 203275006687 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 203275006688 ORF6N domain; Region: ORF6N; pfam10543 203275006689 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 203275006690 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 203275006691 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 203275006692 Int/Topo IB signature motif; other site 203275006693 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 203275006694 active site 203275006695 DNA binding site [nucleotide binding] 203275006696 Int/Topo IB signature motif; other site 203275006697 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 203275006698 Helix-turn-helix domains; Region: HTH; cl00088 203275006699 BRO family, N-terminal domain; Region: Bro-N; cl10591 203275006700 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 203275006701 Cupin domain; Region: Cupin_2; cl09118 203275006702 Helix-turn-helix domain; Region: HTH_18; pfam12833 203275006703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 203275006704 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 203275006705 MatE; Region: MatE; cl10513 203275006706 MatE; Region: MatE; cl10513 203275006707 RteC protein; Region: RteC; pfam09357 203275006708 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 203275006709 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 203275006710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006711 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 203275006712 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 203275006713 Active Sites [active] 203275006714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 203275006715 AAA domain; Region: AAA_23; pfam13476 203275006716 Walker A/P-loop; other site 203275006717 ATP binding site [chemical binding]; other site 203275006718 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 203275006719 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 203275006720 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 203275006721 active site 203275006722 catalytic triad [active] 203275006723 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 203275006724 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 203275006725 Walker A motif; other site 203275006726 ATP binding site [chemical binding]; other site 203275006727 Walker B motif; other site 203275006728 arginine finger; other site 203275006729 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 203275006730 non-specific DNA binding site [nucleotide binding]; other site 203275006731 salt bridge; other site 203275006732 sequence-specific DNA binding site [nucleotide binding]; other site 203275006733 Transposase domain (DUF772); Region: DUF772; cl15789 203275006734 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 203275006735 Transposase domain (DUF772); Region: DUF772; cl15789 203275006736 Transposase; Region: DEDD_Tnp_IS110; pfam01548 203275006737 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 203275006738 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 203275006739 active site 203275006740 Int/Topo IB signature motif; other site 203275006741 DNA binding site [nucleotide binding] 203275006742 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006743 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 203275006744 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 203275006745 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 203275006746 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 203275006747 putative ligand binding site [chemical binding]; other site 203275006748 FlgD Ig-like domain; Region: FlgD_ig; cl15790 203275006749 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 203275006750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 203275006751 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 203275006752 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 203275006753 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 203275006754 RNA binding surface [nucleotide binding]; other site 203275006755 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 203275006756 active site 203275006757 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 203275006758 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 203275006759 ATP-grasp domain; Region: ATP-grasp_4; cl03087 203275006760 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 203275006761 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 203275006762 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 203275006763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006764 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 203275006765 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 203275006766 active site 203275006767 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 203275006768 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 203275006769 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 203275006770 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 203275006771 structural tetrad; other site 203275006772 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 203275006773 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 203275006774 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 203275006775 protein binding site [polypeptide binding]; other site 203275006776 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 203275006777 Domain interface; other site 203275006778 Peptide binding site; other site 203275006779 Active site tetrad [active] 203275006780 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 203275006781 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 203275006782 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 203275006783 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; cl10015 203275006784 homotrimer interaction site [polypeptide binding]; other site 203275006785 putative active site [active] 203275006786 Predicted amidohydrolase [General function prediction only]; Region: COG0388 203275006787 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 203275006788 putative active site [active] 203275006789 catalytic triad [active] 203275006790 dimer interface [polypeptide binding]; other site 203275006791 multimer interface [polypeptide binding]; other site 203275006792 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 203275006793 putative acyl-acceptor binding pocket; other site 203275006794 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 203275006795 Glycogen synthase; Region: Glycogen_syn; pfam05693 203275006796 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 203275006797 putative homodimer interface [polypeptide binding]; other site 203275006798 putative active site pocket [active] 203275006799 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 203275006800 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 203275006801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006802 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 203275006803 NAD(P) binding site [chemical binding]; other site 203275006804 active site 203275006805 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 203275006806 substrate binding site [chemical binding]; other site 203275006807 ATP binding site [chemical binding]; other site 203275006808 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 203275006809 YtxH-like protein; Region: YtxH; cl02079 203275006810 Protein of unknown function (DUF328); Region: DUF328; cl01143 203275006811 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 203275006812 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006813 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 203275006814 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006815 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275006816 starch binding outer membrane protein SusD; Region: SusD; cl15876 203275006817 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 203275006818 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 203275006819 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 203275006820 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 203275006821 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 203275006822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006823 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 203275006824 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 203275006825 putative FMN binding site [chemical binding]; other site 203275006826 Phosphotransferase enzyme family; Region: APH; pfam01636 203275006827 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 203275006828 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 203275006829 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 203275006830 hypothetical protein; Provisional; Region: PRK08185 203275006831 intersubunit interface [polypeptide binding]; other site 203275006832 active site 203275006833 zinc binding site [ion binding]; other site 203275006834 Na+ binding site [ion binding]; other site 203275006835 DNA repair protein RadA; Provisional; Region: PRK11823 203275006836 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 203275006837 Walker A motif/ATP binding site; other site 203275006838 ATP binding site [chemical binding]; other site 203275006839 Walker B motif; other site 203275006840 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 203275006841 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 203275006842 active site 203275006843 NTP binding site [chemical binding]; other site 203275006844 metal binding triad [ion binding]; metal-binding site 203275006845 antibiotic binding site [chemical binding]; other site 203275006846 Protein of unknown function DUF86; Region: DUF86; cl01031 203275006847 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 203275006848 maltose O-acetyltransferase; Provisional; Region: PRK10092 203275006849 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 203275006850 active site 203275006851 substrate binding site [chemical binding]; other site 203275006852 trimer interface [polypeptide binding]; other site 203275006853 CoA binding site [chemical binding]; other site 203275006854 PUA domain; Region: PUA; cl00607 203275006855 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 203275006856 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 203275006857 S-adenosylmethionine binding site [chemical binding]; other site 203275006858 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 203275006859 catalytic site [active] 203275006860 putative active site [active] 203275006861 putative substrate binding site [chemical binding]; other site 203275006862 Acyl transferase domain; Region: Acyl_transf_1; cl08282 203275006863 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 203275006864 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 203275006865 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 203275006866 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 203275006867 Transglycosylase; Region: Transgly; cl07896 203275006868 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275006869 replicative DNA helicase; Region: DnaB; TIGR00665 203275006870 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 203275006871 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 203275006872 Walker A motif; other site 203275006873 ATP binding site [chemical binding]; other site 203275006874 Walker B motif; other site 203275006875 DNA binding loops [nucleotide binding] 203275006876 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 203275006877 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 203275006878 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275006879 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275006880 ABC transporter; Region: ABC_tran_2; pfam12848 203275006881 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 203275006882 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 203275006883 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 203275006884 purine monophosphate binding site [chemical binding]; other site 203275006885 dimer interface [polypeptide binding]; other site 203275006886 putative catalytic residues [active] 203275006887 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 203275006888 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 203275006889 rod shape-determining protein MreB; Provisional; Region: PRK13927 203275006890 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 203275006891 ATP binding site [chemical binding]; other site 203275006892 profilin binding site; other site 203275006893 rod shape-determining protein MreC; Provisional; Region: PRK13922 203275006894 rod shape-determining protein MreC; Region: MreC; pfam04085 203275006895 rod shape-determining protein MreD; Region: MreD; cl01087 203275006896 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 203275006897 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 203275006898 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 203275006899 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 203275006900 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 203275006901 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 203275006902 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 203275006903 dimer interface [polypeptide binding]; other site 203275006904 putative anticodon binding site; other site 203275006905 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 203275006906 motif 1; other site 203275006907 active site 203275006908 motif 2; other site 203275006909 motif 3; other site 203275006910 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 203275006911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 203275006912 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 203275006913 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 203275006914 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 203275006915 active site 203275006916 dimer interface [polypeptide binding]; other site 203275006917 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 203275006918 dimer interface [polypeptide binding]; other site 203275006919 active site 203275006920 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 203275006921 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 203275006922 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 203275006923 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 203275006924 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 203275006925 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 203275006926 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 203275006927 active site 203275006928 metal binding site [ion binding]; metal-binding site